DCAR_004743

Resource Type: 
Polypeptide
Name: 
DCAR_004743
Identifier: 
DCAR_004743.mRNA-protein
Sequence: 
MSRCFPFPPPGYERKPRPDDENLLEKEKRKERKHKKEKKDKNKKDRKEKK
DKEGKQKKEKENSEDKHRERKDRKERHKHKKDKKKEKEKKRASEDKISTG
PPECSTVDNPGSGCTQSDETSDIKFLVELGKRTRDDEKATENLMVKKINL
TGKICSEYPEKMRVGKNGNSDGNAMLTEKRTNDTQYHGQSNNNDARCTEN
GIVQKIVLGQQRKVEGVAGLVGNNVEKRMVHNKIDEHIGSKSRGGRSNEK
DRDGKIKSGAARNSEKEPNKEQLLVAREKSGQAACNNSNTGISPLPNEGN
KNFNLGKRKELRINKFLHDDEIRPSKLQRPLSCAKEAVEDGNYLKLSKAL
TKSVPELAGMVNNHKLNSKQPSSHRTTEDRSKSKATSSAIQFASLGQQTG
DNHKVDNSLASSHYTLENGRTLETLKAASLSASECFRSSINHKVDDKVGS
ARPVLENGVVHKAATLTALKEHEAIGHSKVDNKVNNNVPLSHSTSINGRI
LETSKAGSLPASECYRSSIKPKVDAKVGVAHPVLENGVVHGAATPTAVGG
HESIDHSRFDSKEHKPNGLVKDKRANGSSTRPSSSTAKQIVGEYPKPPHP
DSKYLSKILAIPSIEWSGFEEQEWLLGSNSESTKENPSSSQLKESKQVWD
KALQLESADITALPYVIPY*
Sequence Length: 
670
Sequence Checksum: 
ea0e7815e86963177fd1826028e3ce4c
View location in JBrowse: 
Relationship: 
There is 1 relationship.
Relationships
The polypeptide, DCAR_004743, derives from mRNA, DCAR_004743.
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Blast Results: 
The following BLAST results are available for this feature:
BLAST of DCAR_004743 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Analysis Date: 2021-12-09
Analysis Name: DCAR peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 20
BLAST of DCAR_004743 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A4S4ER04 ((Uncharacterized protein {ECO:0000313|EMBL:THG18852.1}))

HSP 1 Score: 218.009 bits (554), Expect = 1.380e-59
Identity = 238/693 (34.34%), Postives = 349/693 (50.36%), Query Frame = 0
 
Query:    1 MSRCFPFPPPGYERKPRPDDENLLEKEKRKERKHKKEKKDKNKKDRKEKKDKEGKQKKEKENSEDKHRERKDRKERHKHKKDKKKEKEKKRASEDKISTGPPECSTVDNPGSGCTQSDETSDIKFLVELGKRTRDDEKATENLMVKKINLTGKICSEYPEKMRVGKNGNS-DGNAMLTEKRTNDTQYHGQSNNNDARCTENGIVQKIVLGQQRKVEGVA-GLVGNNVEKRMVHNKIDEHIGSKSRGGRSNEKDRDGKIKSGAARNSEKE-----------PNKEQLLVAREKSGQAACNNSNTGISPLPNEGNK----NFNLGKRKELRINKFLHDDEIRPSKLQRPLSCAKEAVEDGNYLKLSKALTKSVPELAGMVNNHKLNSKQPSSHRTTEDRSKSKATSSAIQFASLGQQTGDNHKVDNSLASSHYTLENGRTLETLKAASLSASECFRSSINHKVDDKVGSARPVLENGVVHK---AATLTALKEHEAIGHSKVDNKVNNNVPLSHSTSINGRILETSKAGSLPASECYRSSIKPKVDAKVGVAHPVLENGVVHGAATPTAVGGHESIDHSRFDSKEHKPNGLVKDKRANGSSTRPSSST---AKQIVGEYPKPPHPDSKYLSKILAIPSI-EWSGFEEQEWLLGSNSESTKENPSSSQLKESKQVWDKALQLESADITALPYVIPY 669
            MSRCFPFPPPGYE+K R  D +LL KEK KE+ HKK+KKDK K + KE+K       K+KE S+ KH+E+KDRKE+HK +KDK ++KEKK+  + K   GP E    +  GS C Q  ET+  KFL+EL KR RDD  A EN M++ I++T +  +E P ++     GNS +       KR      +GQ N  +AR  EN +VQ      Q+ VEG A G V  +V+K+    +  +H     +G +  +++R+ K KS     ++++           PNKEQ ++   K  +   ++ N   S L  EG+K    N  LGKRKEL++N FLH                      G +  +      ++P        H L       H+   DR  +       +   L       +K+  S++SSH  + NGR LE  +AA   A E   +  NHKV+ KV S   +L+NG   +   +A  +A +   A  + KV+ KV++   +      NGR LE+  +   PASE                                      +S D+S    KE + NGL + ++ N  S++P SST   AK+ V    K PHPD KYLS+IL++P + E S F++Q+WL  S++++     SS ++  + QVW +A ++ESAD+TALPYVIP+
Sbjct:    1 MSRCFPFPPPGYEKKARLSDTDLLTKEKNKEKGHKKDKKDKEKTEGKERK-------KDKEISDKKHKEKKDRKEKHKDRKDKDRDKEKKKTLDKKNIVGPLEGQNGEKLGSNCLQGGETAGTKFLLELVKRIRDDGGARENQMLQSISVTDQGKAELPGRVVESNIGNSIERKEKNNNKREVGGNVNGQKNKIEARGVENAVVQDFSGMDQKGVEGAAAGPVDKDVKKQREGKEKHKHKDGGGKGDKHKDREREKKRKSKDKDRTKEKEKAKEKAKEKEPNKEQPILG--KGSKDGIDSHNIKPSYLLKEGDKSSTDNGILGKRKELKVNGFLH----------------------GEFFPVLYYDFTALPLTLSCDWKHGLCC---VCHQG-RDRGVAGFDGPVRKPPILEDDDIRPNKLPRSVSSSHQLVGNGRKLEPCQAALQVACERQAAPTNHKVEVKVSSCHLILQNGRKLEPKPSAIESAFERQAAASNHKVEVKVSSRPQILQ----NGRKLESHPSAIEPASE-------------------------------------RQSADNSGKTDKEARVNGLKEAQQLNACSSKPLSSTPVRAKEKVEASVKLPHPDYKYLSQILSVPEVAELSDFDDQDWLFSSDTKA-----SSFEVDGTPQVWAEAFRIESADVTALPYVIPF 612    
BLAST of DCAR_004743 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J7FQX8 ((Uncharacterized protein {ECO:0000313|EMBL:KAF5930655.1}))

HSP 1 Score: 198.364 bits (503), Expect = 1.814e-52
Identity = 229/695 (32.95%), Postives = 342/695 (49.21%), Query Frame = 0
 
Query:    1 MSRCFPFPPPGYERKPRPDDENLLEKEKRKERKHKKEKKDKNKKDRKEKKDKEGKQKKEKENSEDKHRERKDRKERHKHKKDKKKEKEKKRASEDKISTGPPECSTVDNPGSGCTQSDETSDIKFLVELGKRTRDDEKATENLMVKKINLTGKICSEYPEKMRVGKNGNS-DGNAMLTEKRTNDTQYHGQSNNNDARCTENGIVQKIVLGQQRKVEGVA-GLVGNNVEKRMVHNKIDEHIGSKSRGGRSNEKDRDGKIKSGAARNSEKEPNKEQLLVARE-------------KSGQAACNNSNTGISPLPNEGNK----NFNLGKRKELRINKFLHDDEIRPSKLQRPLSCAKEAVEDGNYLKLSKALTKSVPELAGMVNNHKLNSKQPSSHRTTEDRSKSKATSSAIQFASLGQQTGDNHKVDNSLASSHYTLENGRTLETLKAASLSASECFRSSINHKVDDKVGSARPVLENGVVHK---AATLTALKEHEAIGHSKVDNKVNNNVPLSHSTSINGRILETSKAGSLPASECYRSSIKPKVDAKVGVAHPVLENGVVHGAATPTAVGGHESIDHSRFDSKEHKPNGLVKDKRANGSSTRPSSST---AKQIVGEYPKPPHPDSKYLSKILAIPSI-EWSGFEEQEWLLGSNSESTKENPSSSQLKESKQVWDKALQLESADITALPYVIPY 669
            MSRCFPFPPPGY +K R  D +LL K K K++ HKK+KKDK K + KE+K       K+KE S+ KH+E+KDRKE+HK +KDK ++KEKK+  + K    P E    +  GS C Q  ET+  KFL+EL KR RDD  A EN M++ I++T +  +E P ++     GNS +       KR      +GQ N  +AR  EN +VQ      Q+ VEG A G V  +V+K+    +  +H     +G +  +++R+ K KS     ++++   ++    +              K  +   ++ N   S L  EG+K    N  LGKRKEL++N FLH                      G +  +      ++P        H L       H+   DR  +       +   L       +K+  S++SSH  + NGR LE  +AA   A E   +  NHKV+ KV S   +L+NG   +   +A  +A +   A  + KV+ KV++   +      NGR LE+  +   PASE                                      +S D+S    KE + NGL + ++ N  S++P SST   AK+ V    K PHPD KYLS+IL++P + E S F++Q+WL  S++++     SS ++  + QVW +A ++ESAD+TALPYVIP+
Sbjct:    1 MSRCFPFPPPGYVKKARLSDTDLLTKAKNKDKGHKKDKKDKEKTEGKERK-------KDKEISDKKHKEKKDRKEKHKDRKDKDRDKEKKKTLDKKNIVCPSEGQNGEKLGSNCLQGGETAGTKFLLELVKRIRDDGGARENQMLQSISVTDQGKAELPGRVVESNIGNSIERKEKNNNKREVGGNVNGQKNKIEARGVENAVVQDFSGMDQKGVEGAAAGPVDKDVKKQREGKEKHKHKDGDGKGDKHKDREREKKRKSKDKDRTKEKEKGKEKAKEKAKEKEPNKEQPILGKGSKDGIDSHNIKPSYLLKEGDKSSTDNGILGKRKELKVNGFLH----------------------GEFFPVLYYDFTALPLTLSCDWKHGLCR---VCHQG-RDRGVAGFDGPVRKPPILEDDDIRPNKLPRSVSSSHQLVGNGRKLEPCQAALQVACERQAAPTNHKVEVKVSSCHLILQNGRKLEPKPSAIESAFERQAAASNHKVEVKVSSRPQILQ----NGRKLESHPSAIEPASE-------------------------------------RQSADNSGKTDKEARVNGLKEAQQLNACSSKPLSSTPVRAKEKVEASVKLPHPDYKYLSQILSVPEVAELSDFDDQDWLFSSDTKA-----SSFEVDGTPQVWAEAFRIESADVTALPYVIPF 616    
BLAST of DCAR_004743 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A068U6V6 ((Uncharacterized protein {ECO:0000313|EMBL:CDP03924.1}))

HSP 1 Score: 184.111 bits (466), Expect = 1.925e-47
Identity = 227/697 (32.57%), Postives = 331/697 (47.49%), Query Frame = 0
 
Query:    1 MSRCFPFPPPGYERKPRPD-DENLLEKEKRKERKHKKEKKDKNKKDRKEKKDKEGKQKKEKENSEDKHRERKDRKERHKHKKDKKKEKEKKRASEDKISTGPPECSTVDNPGSGCTQSDETSDIKFLVELGKRTRDDEKATENLMVKKI---NLT--GKICSEYPEKMRVGKNGNSDGNAMLTEKRTNDTQYHGQSNNNDARCTENGIVQKIVLGQQRKVEGVAGLVGNNVEKRMVHNKIDEHIGSKSRGGRSNEKDRDGKIKS-GAARNSEKEPNKEQLLVAREKSGQ---AACNNSNTGISPLPNEGN-KNFNLGKRKELRINKFLHDDEIRPSKLQRPLSCAKEAVEDGNYLKLSKALTKSVPELAGMVNNHKL-NSKQPSSHRTTEDRSKSKATSSAIQFASLGQQ-------TGDNHKVDNSLASSHYTLENGRTLETLKAASLSASECFRSSINH-KVDDKVGSARPVLENG----VVHKAATLTALKEHEAIGHSKVDNKVNNNVPLSHSTSINGRILETSKAGSLPASECYRSSIKPKVDAKVGVAHPVLENGVVHGAATPTAVGGHESIDHSRFDSKEHKPNGLVKDKRANGSSTRPSSSTA--KQIVGEYPKPPHPDSKYLSKILAIPSIEWSGFEEQEWLLGSNSESTKENPS--SSQLKESKQVWDKALQLESADITALPYVIPY 669
            MSRCFPFPPPGYE+K RPD D NLL KEK +E+KHKK+KKDK KK+         +++K+KE S +KHRE+KD+K RHK KK+K   KE+K+ S++K      +    +  G    +  ET D +  V+LG + R D+ A E  ++++I   +LT  GK+        ++G     DGN    +KR  +   +GQ+   +     NG V       Q+ +EG +       EK+       +H G+  RG +   +DR+ K KS    R  EKE  KE   +   K G+    A +  N   S L  E N +N  LGKRKE                                            PE+ G VN H++ N+K P   R      +   T + I+ +S G Q       T   HK +    SS   +ENGR LE  +     ASE   +   H K  D   S +P    G          + T L++     ++K   KV +  P++     NGR L +S+  +L A+E    +  PK+  K   ++         G   P            + D +  K NG V+ K+    S   SS+    K+IV +Y KPPHPD+KYLS++L++P +EWS  ++Q+WL  S  +   +NP   S  ++ES+QVW +AL++ESAD+ ALPYVIPY
Sbjct:    1 MSRCFPFPPPGYEKKTRPDEDANLLLKEKPREKKHKKDKKDKEKKE---------RREKDKEKSSEKHREKKDKKHRHKDKKEKSSNKEEKKTSDEKTIVAFSDHQNSEKFGLTGLEVGETQDSRLFVDLGNKVRKDDGAKELQILERITNRDLTPPGKVLEH-----KIGVL--DDGNKKFRDKREKNRIPNGQTVKINGIGFANGFVHNFPPKIQKNIEGSSYQEDKVTEKQKERKDSKKHKGADGRGDKEKGRDREKKSKSKDKNRKREKEKAKEFSSLMPSKLGEHDNNARDFKNDEGSYLFKETNVQNGILGKRKE--------------------------------------------PEMDGCVNGHEIQNNKLP---RLVSSSCQVVQTGNTIESSSKGNQLNLEKESTLQKHKPNAKFLSSVSPVENGRKLEMTQIPINIASERQEAVSKHGKASDSPSSLKPPSGTGRNSESCQFVGSFTELEQGVVSNNTKDFTKVLSMQPVAE----NGRKLGSSQFNNLNAAERQAGACIPKLSEKGSRSN---------GFVVP------------KLDERASKINGSVELKKPKACSMEMSSACLEDKEIVEKYLKPPHPDAKYLSQVLSLPKVEWSDVDDQKWLF-SREDHQAKNPKYVSPVIEESEQVWAEALRIESADVIALPYVIPY 608    
BLAST of DCAR_004743 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6P6SZW7 ((DNA ligase 1-like {ECO:0000313|RefSeq:XP_027071231.1}))

HSP 1 Score: 184.111 bits (466), Expect = 2.123e-47
Identity = 226/697 (32.42%), Postives = 331/697 (47.49%), Query Frame = 0
 
Query:    1 MSRCFPFPPPGYERKPRPD-DENLLEKEKRKERKHKKEKKDKNKKDRKEKKDKEGKQKKEKENSEDKHRERKDRKERHKHKKDKKKEKEKKRASEDKISTGPPECSTVDNPGSGCTQSDETSDIKFLVELGKRTRDDEKATENLMVKKI---NLT--GKICSEYPEKMRVGKNGNSDGNAMLTEKRTNDTQYHGQSNNNDARCTENGIVQKIVLGQQRKVEGVAGLVGNNVEKRMVHNKIDEHIGSKSRGGRSNEKDRDGKIKS-GAARNSEKEPNKEQLLVAREKSGQ---AACNNSNTGISPLPNEGN-KNFNLGKRKELRINKFLHDDEIRPSKLQRPLSCAKEAVEDGNYLKLSKALTKSVPELAGMVNNHKL-NSKQPSSHRTTEDRSKSKATSSAIQFASLGQQ-------TGDNHKVDNSLASSHYTLENGRTLETLKAASLSASECFRSSINH-KVDDKVGSARPVLENG----VVHKAATLTALKEHEAIGHSKVDNKVNNNVPLSHSTSINGRILETSKAGSLPASECYRSSIKPKVDAKVGVAHPVLENGVVHGAATPTAVGGHESIDHSRFDSKEHKPNGLVKDKRANGSSTRPSSSTA--KQIVGEYPKPPHPDSKYLSKILAIPSIEWSGFEEQEWLLGSNSESTKENPS--SSQLKESKQVWDKALQLESADITALPYVIPY 669
            MSRCFPFPPPGYE+K RPD D NLL KEK +E+KHKK+KKDK KK+         +++K+KE S +KHRE+KD+K RHK KK+K   KE+K+ S++K      +       G    +  ET + +  V+LG + R D+ A E  ++++I   +LT  GK+        ++G     DGN    +KR  +   +GQ+   +     NG V       Q+ +EG +       EK+       +H G+  RG +   +DR+ K KS    R  EKE  KE   +   K G+    A +  N   S L  E N +N  LGKRKE                                            PE+ G VN H++ N+K P   R      +   T + I+ +S G Q       T   HK +    SS   +ENGR LE  +     ASE   +   H K  D + S +P    G          + T L++     ++K   KV +  P++     NGR L +S+  +L A+E    +  PK+  K   ++         G   P            + D +  K NG V+ K+    S   SS+    K+IV +Y KPPHPD+KYLS++L++P +EWS  ++Q+WL  S  +   +NP   S  ++ES+QVW +AL++ESAD+ ALPYVIPY
Sbjct:    1 MSRCFPFPPPGYEKKTRPDEDANLLLKEKPREKKHKKDKKDKEKKE---------RREKDKEKSSEKHREKKDKKHRHKDKKEKSSNKEEKKTSDEKTIVAFSDHQNSQKFGLTGLEVGETQNSRLFVDLGNKVRKDDGAKELQILERITNRDLTPPGKVLEH-----KIGVL--DDGNQKFRDKREKNRIPNGQTVKINGIGFANGFVHNFPPKIQKNIEGSSYREDKVTEKQKERKDSKKHKGADGRGDKEKGRDREKKSKSKDKNRKREKEKAKEFSSLMPSKLGEHDNNAIDFKNDEGSYLFKETNVQNGILGKRKE--------------------------------------------PEMDGCVNGHEIQNNKLP---RLVSSSCQVVQTGNTIESSSKGNQLNLEKESTLQKHKPNAKFLSSVSPVENGRKLEMTQIPINIASERQEAVSKHGKASDSLSSLKPPSGTGRNSESCQFVGSFTELEQGVVSNNTKDFTKVLSMQPVAE----NGRKLGSSQFNNLNAAERQAGACIPKLSEKGSRSN---------GFVVP------------KLDERASKINGSVELKKPKACSMEMSSACLEDKEIVEKYLKPPHPDAKYLSQVLSLPKVEWSDVDDQKWLF-SREDHQAKNPKYVSPVIEESEQVWAEALRIESADVIALPYVIPY 608    
BLAST of DCAR_004743 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7A9X4 ((Putative myb-like protein X {ECO:0000313|EMBL:MPA53539.1}))

HSP 1 Score: 159.073 bits (401), Expect = 3.996e-39
Identity = 168/417 (40.29%), Postives = 231/417 (55.40%), Query Frame = 0
 
Query:    1 MSRCFPFPPPGYERKPRPDDENLLEKEKRKERKHKKEKKDKNKKDRKEKKDKEGKQKKEKENSEDKHRERKDRKERHKHKKDKKKEKEKKRASEDKISTGPPECSTVDNPGSGCTQSDETSDIKFLVELGKRTRDDEKATENLMVKKINLTGKICSEYPEKMRVGKNGN-SDGNAMLTEKRTNDTQYHGQSNNNDARCTENGIVQKIVLGQQRKVEGVAGLVGNNVEKRMVHNKIDEHIGSKSRGGRSNEKDRDGKIKSGAARNSEKEPNKEQLLVAREKSGQAACNNSN--------TGISPLPNEGNK----NFNLGKRKELRINKFLHDDEIRPSKLQRPLSCAKEAVEDGNYLKLSKALTKSVPELAGMVNNHKLNSKQPSSHRTTEDRSKSKATSSAIQFASLGQQTGDNHK 404
            MSRCFPFPPPGYE+K RPDD NLL KEK KE++HKK+KKDK K++ K KKDKE  ++K KE  +         KE+HK KK+K ++KEK+R S++K   GPPE    +     C QS+ET D KF VELGKR RD+  A EN MV++++ T +  +E P K+     GN ++G     EK  +D + +GQ N  + R  EN +VQ      +++V GVA     + EK+    + ++   S SRG R  ++DR+ K KS    + +K+  +E+         Q     SN        T  S L  E NK    N NLGKRKE   N FLH++ IRP KL RP+S + + VE+G  L+  +       +  G  NNHK+++K   SH   E   K +    AI  AS  Q   +NHK
Sbjct:    1 MSRCFPFPPPGYEKKDRPDDTNLLTKEKHKEKRHKKDKKDKEKREGKGKKDKERNKEKHKEKKD--------PKEKHKDKKEKDRDKEKRRTSDEKKIVGPPEYHNGEKLDPNCPQSNETKDSKFFVELGKRIRDEGGARENQMVQEVSATDQRRAELPRKVVDNNIGNLAEGKDKYKEKTEDDRKANGQRNKVEERGMENLVVQDFTGLDKKRVGGVARPADKDFEKQRNGKEKNKKKDSDSRGDRHKDRDREKKRKSKDKDSDKKKEKEEKAKEKEPNKEQPKLKESNKDVLDIFSTKTSYLLKESNKSSASNGNLGKRKEHERNGFLHENGIRPIKLLRPVSSSHQVVENGRKLEPCQMALHFASKGQGEANNHKVDNKISLSHPIMEIGRKLEPGQGAIHSASETQGAANNHK 409    

HSP 2 Score: 127.872 bits (320), Expect = 1.762e-28
Identity = 77/193 (39.90%), Postives = 111/193 (57.51%), Query Frame = 0
 
Query:  488 VPLSHSTSINGRILETSKAGSLPASECYRSSIKPKVDAKVGVAHPVLE--------NGVVHGAATPTAVGGHESIDHSRFDSKEHKPNGLVKDKRANGSSTRPSSS--TAKQIVGEYPKPPHPDSKYLSKILAIPSIEWSGFEEQEWLLGS-NSESTKENPSSSQLKESKQVWDKALQLESADITALPYVIPY 669
            V  SH    NGR LE  +     AS+    +   KVD K+ ++HP++E         G +H A+           +H +++ KE + NGL++ ++ N    +PSS+   AK  V    KP HPDSKYLS IL+IP +EWS F++Q WL  S N ++ K    SS++  + +VW +ALQ+ESAD+TALPYVIPY
Sbjct:  336 VSSSHQVVENGRKLEPCQMALHFASKGQGEANNHKVDNKISLSHPIMEIGRKLEPGQGAIHSASETQGAAN----NHKKYN-KEPRINGLIEAQQPNVCLMKPSSAPVQAKVKVESSVKPQHPDSKYLSLILSIPKVEWSDFDDQGWLFSSKNLQAEKPTVGSSEVDGTLEVWAEALQIESADVTALPYVIPY 523    

HSP 3 Score: 41.9726 bits (97), Expect = 3.701e-1
Identity = 21/50 (42.00%), Postives = 32/50 (64.00%), Query Frame = 0
 
Query:  409 LASSHYTLENGRTLETLKAASLSASECFRSSINHKVDDKVGSARPVLENG 458
            ++SSH  +ENGR LE  + A   AS+    + NHKVD+K+  + P++E G
Sbjct:  336 VSSSHQVVENGRKLEPCQMALHFASKGQGEANNHKVDNKISLSHPIMEIG 385    
BLAST of DCAR_004743 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7ACB6 ((Putative myb-like protein X {ECO:0000313|EMBL:MPA53538.1}))

HSP 1 Score: 158.688 bits (400), Expect = 4.359e-39
Identity = 168/417 (40.29%), Postives = 231/417 (55.40%), Query Frame = 0
 
Query:    1 MSRCFPFPPPGYERKPRPDDENLLEKEKRKERKHKKEKKDKNKKDRKEKKDKEGKQKKEKENSEDKHRERKDRKERHKHKKDKKKEKEKKRASEDKISTGPPECSTVDNPGSGCTQSDETSDIKFLVELGKRTRDDEKATENLMVKKINLTGKICSEYPEKMRVGKNGN-SDGNAMLTEKRTNDTQYHGQSNNNDARCTENGIVQKIVLGQQRKVEGVAGLVGNNVEKRMVHNKIDEHIGSKSRGGRSNEKDRDGKIKSGAARNSEKEPNKEQLLVAREKSGQAACNNSN--------TGISPLPNEGNK----NFNLGKRKELRINKFLHDDEIRPSKLQRPLSCAKEAVEDGNYLKLSKALTKSVPELAGMVNNHKLNSKQPSSHRTTEDRSKSKATSSAIQFASLGQQTGDNHK 404
            MSRCFPFPPPGYE+K RPDD NLL KEK KE++HKK+KKDK K++ K KKDKE  ++K KE  +         KE+HK KK+K ++KEK+R S++K   GPPE    +     C QS+ET D KF VELGKR RD+  A EN MV++++ T +  +E P K+     GN ++G     EK  +D + +GQ N  + R  EN +VQ      +++V GVA     + EK+    + ++   S SRG R  ++DR+ K KS    + +K+  +E+         Q     SN        T  S L  E NK    N NLGKRKE   N FLH++ IRP KL RP+S + + VE+G  L+  +       +  G  NNHK+++K   SH   E   K +    AI  AS  Q   +NHK
Sbjct:    1 MSRCFPFPPPGYEKKDRPDDTNLLTKEKHKEKRHKKDKKDKEKREGKGKKDKERNKEKHKEKKD--------PKEKHKDKKEKDRDKEKRRTSDEKKIVGPPEYHNGEKLDPNCPQSNETKDSKFFVELGKRIRDEGGARENQMVQEVSATDQRRAELPRKVVDNNIGNLAEGKDKYKEKTEDDRKANGQRNKVEERGMENLVVQDFTGLDKKRVGGVARPADKDFEKQRNGKEKNKKKDSDSRGDRHKDRDREKKRKSKDKDSDKKKEKEEKAKEKEPNKEQPKLKESNKDVLDIFSTKTSYLLKESNKSSASNGNLGKRKEHERNGFLHENGIRPIKLLRPVSSSHQVVENGRKLEPCQMALHFASKGQGEANNHKVDNKISLSHPIMEIGRKLEPGQGAIHSASETQGAANNHK 409    

HSP 2 Score: 129.028 bits (323), Expect = 6.619e-29
Identity = 77/193 (39.90%), Postives = 112/193 (58.03%), Query Frame = 0
 
Query:  488 VPLSHSTSINGRILETSKAGSLPASECYRSSIKPKVDAKVGVAHPVLE--------NGVVHGAATPTAVGGHESIDHSRFDSKEHKPNGLVKDKRANGSSTRPSSS--TAKQIVGEYPKPPHPDSKYLSKILAIPSIEWSGFEEQEWLLGS-NSESTKENPSSSQLKESKQVWDKALQLESADITALPYVIPY 669
            V  SH    NGR LE  +     AS+    +   KVD K+ ++HP++E         G +H A+           +H +++ KE + NGL++ ++ N    +PSS+   AK  V    KP HPDSKYLS+IL+IP +EWS F++Q WL  S N ++ K    SS++  + +VW +ALQ+ESAD+TALPYVIPY
Sbjct:  336 VSSSHQVVENGRKLEPCQMALHFASKGQGEANNHKVDNKISLSHPIMEIGRKLEPGQGAIHSASETQGAAN----NHKKYN-KEPRINGLIEAQQPNVCLMKPSSAPVQAKVKVESSVKPQHPDSKYLSQILSIPKVEWSDFDDQGWLFSSKNLQAEKPTVGSSEVDGTLEVWAEALQIESADVTALPYVIPY 523    

HSP 3 Score: 41.9726 bits (97), Expect = 3.606e-1
Identity = 21/50 (42.00%), Postives = 32/50 (64.00%), Query Frame = 0
 
Query:  409 LASSHYTLENGRTLETLKAASLSASECFRSSINHKVDDKVGSARPVLENG 458
            ++SSH  +ENGR LE  + A   AS+    + NHKVD+K+  + P++E G
Sbjct:  336 VSSSHQVVENGRKLEPCQMALHFASKGQGEANNHKVDNKISLSHPIMEIG 385    
BLAST of DCAR_004743 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6I9TT97 ((uncharacterized protein LOC105170123 {ECO:0000313|RefSeq:XP_011089047.1, ECO:0000313|RefSeq:XP_011089048.1}))

HSP 1 Score: 155.992 bits (393), Expect = 1.909e-37
Identity = 118/381 (30.97%), Postives = 185/381 (48.56%), Query Frame = 0
 
Query:  305 LGKRKELRINKFLHDDEIRPSKLQRPLSCAKEAVEDGNYLKLSKALTKSVPELAGMVNNHKLNSKQPSSHRTTED-RSKSKATSSAIQFASLGQQTGDNHKVDNSLASSHYTLENGRTLETLKA-ASLSASECFRSSINHKVDDKVGSARPVLENGVVHKAATLTALKEHEAIGHSKVDNKVNNNVPLSHSTSINGRILETSK-----------AGSLPASECYRSSIKPKVDAKVGVAHPVLENGV-VHGAATPTAVGGHESIDHSRFDSKEHKPNGLVKDKRANGSSTRPSSSTAK--QIVGEYPKPPHPDSKYLSKILAIPSIEWSGFEEQEWLLGSNSESTKENPSSSQLKESKQVWDKALQLESADITALPYVIPY 669
            L ++KE  +N F+H + +RP  + RP   + +   +G+     +       E   ++ NHK+NSK  SS    ++ R++    ++    A  G+ T  NH   N L+SSH +   G  +E  +   +L+  E F    NH  D+K+ S+ P                      G + + N V +N  +S   +  GR +E  +           A +  A+E + SS            HPV+ENG  + G     AV    +    + D KE + NG ++ K  +  S+RPSS++ K  + +    KPPHPD KYLS++L IP +EWS F++Q+WL G      K    SSQ+  +KQVW +A+Q+ESAD+T +PYVIPY
Sbjct:  301 LAEQKEPVLNGFIHGNGVRPHNMSRPALSSHQVSSNGSGFHPPQNTVNLAVEKGAVIMNHKVNSKVLSSPAVIQNVRNREPGQTANNSRAENGRATVANHVAGNGLSSSHIS-GIGTKMELCQTDRNLAKVEQFVD--NHSADEKLPSSHPR---------------------GRATMANHVVSNGLISSDVAGIGRKMEPCQTNRNVAKVEQFANNDSAAESFHSS------------HPVVENGRKIAGPKIDKAVDSQRAYAVHKMDEKEFRKNGTLECK--DLVSSRPSSASVKDKEKIAASMKPPHPDLKYLSQVLTIPKVEWSQFDDQDWLFGCKDSKAKRPKLSSQIDWTKQVWAEAIQVESADVTFMPYVIPY 643    
BLAST of DCAR_004743 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5C6V5 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8550574.1}))

HSP 1 Score: 152.525 bits (384), Expect = 8.986e-37
Identity = 169/457 (36.98%), Postives = 237/457 (51.86%), Query Frame = 0
 
Query:    1 MSRCFPFPPPGYERKPRPDDENLLEKEKRKERKHKKEKKDKNKKDRKEKKDKEGKQKKEKENSEDKHRERKDRKERHKHKKDKKKEKEKKRASEDKISTGPPECSTVDNPGSGCTQSDETSDIKFLVELGKRTRDDEKATENLMVKKINLTGK-----------------------------IC------SEYPEKMRVGKNGNSDGNAMLTEKRTNDTQYHGQSNNNDARCTENGIVQKIVLGQQRKVEGVAGLVGNNVEKRMVHNKIDEHIGSKSRGGRSNEKDRDGKIKSGAARNSEK----------EPNKEQLLVAREKSGQAACNNSNTGISPLPNEGNK----NFNLGKRKELRINKFLHDDEIRPSKLQRPLSCAKEAVEDGNYLKLSKALTKSVPELAGMVNNHKLNSKQPSSHRTTEDRSKSKATSSAIQFASLGQQTGDNHKVDNS 408
            MSRCFPFPPPGYE+K RP D NLL K+K KE++HKK+K+DK K++ KEKKD+E  ++K KE  E K R+ K + +     K+K++  ++K+        GPPEC         C +SDET D KFL+ELGKR RD+  A EN MV+ I  T K                             IC      +E P K+      N+ GN    +K  +D + +GQ N  +A+  EN +VQ      Q++V GVA  V  +VEK+M   + ++   S +RG R  ++D++ K KS      +K          EPNKEQ  +   K       N+ T  S L NE NK    N +LGKRKE   N FL D+EIRP KL RP+S + + VE+G  L+  +       E  G  NNHK+++K   SH   ++  K +    AI  A+  Q   +NH+ D++
Sbjct:    1 MSRCFPFPPPGYEKKDRPVDTNLLTKDKLKEKRHKKDKEDKKKREGKEKKDEERNKEKHKEKKEKKDRKEKHKDKDKDRDKEKRRTSDEKKI------VGPPECHNGKKLDPNCPRSDETKDSKFLLELGKRIRDEGGARENRMVQGICATDKRRAEPLRKAVENNIGNFAEGKKTEDDRKGICASDQRRAEPPRKVV----ENNIGNFAEGKKTEDDNKANGQKNRVEAKDIENLVVQDFTGLDQKRV-GVARPVVKDVEKQMDRKEKNKKKDSDNRGDRHKDRDQEKKSKSKDKDRDKKKEKKEKAKENEPNKEQPKLKESKKDILDIRNAET--SCLLNESNKSSASNGSLGKRKEHERNGFL-DNEIRPIKLLRPISSSHQLVENGRKLEPCQTALHFASERPGEANNHKVDNKISFSHPIMKNGRKLEPDQGAIHSATEKQGAANNHRKDDN 443    

HSP 2 Score: 142.51 bits (358), Expect = 2.447e-33
Identity = 87/222 (39.19%), Postives = 126/222 (56.76%), Query Frame = 0
 
Query:  464 ATLTALKEHEAIGHSKVDNKVN-----NNVPLSHSTSINGRILETSKAGSLPASECYRSSIKPKVDAKVGVAHPVLENG--------VVHGAATPTAVGGHESIDHSRFDSKEHKPNGLVKDKRANGSSTRPSSS--TAKQIVGEYPKPPHPDSKYLSKILAIPSIEWSGFEEQEWLLGS-NSESTKENPSSSQLKESKQVWDKALQLESADITALPYVIPY 669
             +L   KEHE  G   +DN++        +  SH    NGR LE  +     ASE    +   KVD K+  +HP+++NG         +H A        +    H + D+KE + NGL++ ++ N  S +PSS+   AK  V    KPPHPDSKYLS+IL++P +EW  F+EQEWL  S N ++ K    SS++  +++VW +ALQ++SAD+TALPYVIPY
Sbjct:  339 GSLGKRKEHERNGF--LDNEIRPIKLLRPISSSHQLVENGRKLEPCQTALHFASERPGEANNHKVDNKISFSHPIMKNGRKLEPDQGAIHSATEKQGAANN----HRKDDNKEPRTNGLIEAQQPNVCSIKPSSAPVQAKVKVESSVKPPHPDSKYLSQILSVPKVEWPDFDEQEWLFSSENLQAKKPKMVSSEVDGTQKVWAEALQIDSADVTALPYVIPY 554    
BLAST of DCAR_004743 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2P5C826 ((Uncharacterized protein {ECO:0000313|EMBL:PON57230.1}))

HSP 1 Score: 149.828 bits (377), Expect = 2.928e-35
Identity = 203/747 (27.18%), Postives = 325/747 (43.51%), Query Frame = 0
 
Query:    1 MSRCFPFPPPGYERKPRPDDENLLEKEKRKERKHKKEKKDKNKKDRKEKKDKEGKQKKEKENSEDKHRERKDRKERHKHKKDKKKEKEKKRASEDKISTGPPECSTVDNPGSGCTQ-----SDETSDIKFLVELG-----KRTR----DDEKATENLMVKKINLTGKICSEYPEKMRVGKNGNSDGNAMLT-------------EKRTNDTQYHGQSNNNDARCTENGIVQKIVLGQQRKVEGVAGLVGNNVEKRMVHNKIDEHIGSKSRGGRSNEKDRDGKIKSGAARNSEKEPNKE---------------------------------QLLVAREKSGQAACNNSNTGI------SP-LPNEGNKNFNLG----KRKELRINKFLHDDEIRPSKLQRPLSCAKEAVEDGNYLKLSKALTKSVPELAGMVNNHKLNSKQPSSHRTTEDRSKSKATSSAIQFASLGQQTGDNHKVDNSLASSHYTLENGRTLETLKAASLSASECFRSSINHKVDDKVGSARPVLENGVVHK---AATLTALKEHEAIGHSKVDNKVNNNVPLSHSTSINGRILETSKAGSLPASECYRSSIKPKVDAKVGVAHPVLENGVVHGAATPTAVGGHESIDHSRFDSKEHKPNGLVKDKRANGSSTRPSSSTAKQ--IVGEYPKPPHPDSKYLSKILAIPSI-EWSGFEEQEWLLGSN-SESTKENPSSSQLKESKQVWDKALQLESADITALPYVIPY 669
            MSRCFPFPPPGYERK   D ENLLEKEK +E+KHKK+KKD+ K++ KEK++K+    K +E  + K + +   K+R K +KD +K K+K +AS++K  +G     T  + G    Q      D + D KF  ++G     KR++    DDE        ++I           ++  V      +G   L              ++R  D    GQ   +  R   N  VQ +    Q K E +  L+  NV+++M  N+  +   S  + G   ++    K   G  ++ ++E  KE                                 ++ +  E+  +   +N N  I      +P LPN+ N + + G    KRK+   N   H  +  PSKL RP   ++ + E+G  L+  +     V +  G  NN K++      H+   DR  S                           S++  +E  + +    A +           N K+D+K    R V  NGV+     + +   LK  +A+     +  V ++ P   S S++   L+++KA + P +E    S  P+       A P+        + +P  +    ++     ++    P+   +   ++    +P S+TA          +PPHPDSKYLS+I A+P++ EWS + + EWL GSN SE  K     S ++E+ QVW +  Q+ESADI ALPYVIPY
Sbjct:    1 MSRCFPFPPPGYERKATNDHENLLEKEKHREKKHKKDKKDREKREGKEKREKDRSDGKHREKKDKKEKHKDRDKKRDK-EKDGEKTKDKTKASDEKRLSG----QTESHGGEKLFQKEVKDKDSSIDKKFFSQVGGYNAEKRSQNSNLDDESKVVQEFARRIKDEAAGTGNQFDRFSVADQKKDEGMVRLVARGTSTLPGGMEKDRRAEDKATDGQGTRDGTRPGGNARVQNVTGMVQAKFEALPRLLDKNVDRKMDTNEKTKDRESDDKRGVKRKEKDREKKSHGKDKDRDREKQKEDKQKRREDRQKKKEEKQKRREDKEKKKEEKAKEKIQLKNEEVDKLRVSNKNNLIDNHAIKTPQLPNDSNNSVSTGGTPKKRKDFETNGVTHAHDGMPSKLLRPAPFSRPSTENGRILEPCQTSVLDVSDRKGASNNVKMD------HKDISDRKGS---------------------------STYLKMEEHKDISRKGATN-----------NLKMDNK---DRKV--NGVIEAQPLSVSPMKLKSAKAVAAPIAEASVRSSHPEVQSLSVSPMKLKSAKAVADPVAEASVRSPHPE-------AQPL--------SVSPMKLKSETAVTDPIAETSTRPPHPEAR-TLSDSPMKKPKSATAAADPFAEALARPPHPDSKYLSQIYAVPTMEEWSEYNDDEWLFGSNASEQKKAKVELSVVEETPQVWSEGRQIESADIFALPYVIPY 677    
BLAST of DCAR_004743 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A834YMP6 ((Uncharacterized protein {ECO:0000313|EMBL:KAF8391944.1}))

HSP 1 Score: 144.436 bits (363), Expect = 9.316e-34
Identity = 90/229 (39.30%), Postives = 142/229 (62.01%), Query Frame = 0
 
Query:    1 MSRCFPFPPPGYERKPRPDDENLLEKEKRKERKHKKEKKDKNKKDRKEKKDKEGKQKKEKENSEDKHRERKDRKERHKHKKDKKKEKEKKRASEDKISTGPPECSTVDNPGSGCTQSDETSDIKFLVELGKRTRDDEKATENLMVKKINLTGKICSEYPEKMRVGKNGNSDGNAMLTEKRTNDTQYHGQSNNNDARCTENGIVQKIVLGQQRKVEGVAGLVGNNVEKRM 229
            MSRCFPFPPPGYE+K R DD +LL KEK+KE++HKK+K+D++K        +EGK+KK+K+ S++K RE+KD+KE+H+ KK  + + + +   E +I  G PE    +  G     +++ +D KF+ ELG+R R+ ++   N MV+K+  T +  +E   ++       ++G     +KR +D+Q  GQ N N+ R   N +VQ  +   QR VEG+A  +  +VEKR+
Sbjct:    1 MSRCFPFPPPGYEKKTRTDDADLLTKEKQKEKRHKKDKRDEDK--------REGKEKKDKDRSKEKRREKKDQKEKHRDKKKDRDKDKNRSLDEKRIE-GQPEGFNGEKLGQNSQSAEKINDAKFVQELGRRIRNGKREVGNQMVEKLAGTDQRRAEGMGRLLEDSGNWAEGKEKNKDKRGDDSQADGQRNRNEERSKGNAMVQNFIRVDQRSVEGMARPMEKDVEKRL 220    

HSP 2 Score: 115.546 bits (288), Expect = 2.888e-24
Identity = 60/146 (41.10%), Postives = 89/146 (60.96%), Query Frame = 0
 
Query:  530 AHPVLENG-VVHGAATPTAVGGHESI--DHSRFDSKEHKPNGLVKDKRANGSSTRPSSSTAKQIV-GEYPKPPHPDSKYLSKILAIPSIE-WSGFEEQEWLLG-SNSESTKENPSSSQLKESKQVWDKALQLESADITALPYVIPY 669
             HP  ENG      +T      +  +  ++ + D+K HK NG+++ + ++  STRP+ +T +  V     KPPHPD KYLS+IL++P +E    F++QEWL    N +S K    S+++ E+ QVW +ALQ+E ADI ALPYVIPY
Sbjct:  464 THPFTENGRTFEQCSTGIQFASNRQVTANNCKLDNKNHKVNGVIEAQSSSVDSTRPAFTTVQANVNAPSTKPPHPDFKYLSQILSVPKMEECPDFDDQEWLFSCDNIQSKKTKAGSTRVSETSQVWAEALQIELADICALPYVIPY 609    

HSP 3 Score: 80.8777 bits (198), Expect = 3.266e-13
Identity = 93/309 (30.10%), Postives = 132/309 (42.72%), Query Frame = 0
 
Query:  124 KFLVELGKRTRDDEKATENLMVKKINLTGKICSE-YPEKMRVGKNGNSDGNAMLTEKRTNDTQYHGQSNNNDARCTENGIVQKIVLGQQRKVEGVAGLVGNNVEKRMV---HNKIDEHIGSKSRGGRSNEKDRDGKIKSGAARNSEKEP-----------------NKEQLLVAREKSGQAACNNSNTGISPLP----NEGNKNFNLGKRKELRINKFLHDDEIRPSKLQRPLSCAKEAVEDGNYLKLSKALTKSVPELAGMVNNHKLNSKQPSSHRTTEDRSKSKATSSAIQFASLGQQTGDNHKVDN 407
            KF+ ELG+R RDDEK T N MV+K   T +  +E     +  G +   +G     +KR ++ +   Q N ++ R   N +VQ+     Q++V+G+   +  +VEKRM     NK D+  G K R      KDRD   KS      +                    NKE   + RE+  +A  +  N   S LP    N      NLGKRK   +N FLHD+++RP+KL RP S                                       S+H  TE+    +  S+ IQFAS  Q T +N K+DN
Sbjct:  234 KFVQELGRRIRDDEKETGNQMVEKFTGTDQRRAEGMCRLLEKGISNCVEGREKNKDKRGDNRRASEQRNKDEERGMGNTVVQEFTTMDQKRVQGMVKSMEKDVEKRMEGKEKNK-DKEGGEKQR---DKHKDRDRDKKSKGKDKDKDRDREKKKEKEKVKEKSDHINKEGDKL-RERGAKAPIDAVNMKPSQLPKHSDNSATTKGNLGKRKNFEMNGFLHDNDVRPTKLPRPAS---------------------------------------STHPFTENGRTFEQCSTGIQFASNRQVTANNCKLDN 498    
Match NameStatsDescription
A0A4S4ER04E-Value: 1.380e-59, PID: 34.34(Uncharacterized protein {ECO:0000313|EMBL:THG1885... [more]
A0A7J7FQX8E-Value: 1.814e-52, PID: 32.95(Uncharacterized protein {ECO:0000313|EMBL:KAF5930... [more]
A0A068U6V6E-Value: 1.925e-47, PID: 32.57(Uncharacterized protein {ECO:0000313|EMBL:CDP0392... [more]
A0A6P6SZW7E-Value: 2.123e-47, PID: 32.42(DNA ligase 1-like {ECO:0000313|RefSeq:XP_02707123... [more]
A0A5B7A9X4E-Value: 3.996e-39, PID: 40.29(Putative myb-like protein X {ECO:0000313|EMBL:MPA... [more]
A0A5B7ACB6E-Value: 4.359e-39, PID: 40.29(Putative myb-like protein X {ECO:0000313|EMBL:MPA... [more]
A0A6I9TT97E-Value: 1.909e-37, PID: 30.97(uncharacterized protein LOC105170123 {ECO:0000313... [more]
A0A5J5C6V5E-Value: 8.986e-37, PID: 36.98(Uncharacterized protein {ECO:0000313|EMBL:KAA8550... [more]
A0A2P5C826E-Value: 2.928e-35, PID: 27.18(Uncharacterized protein {ECO:0000313|EMBL:PON5723... [more]
A0A834YMP6E-Value: 9.316e-34, PID: 39.30(Uncharacterized protein {ECO:0000313|EMBL:KAF8391... [more]

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Analysis: 
NameDescription

An orange, doubled-haploid, Nantes-type carrot (DH1) was used for genome sequencing. We used BAC end sequences and a newly developed linkage map with 2,075 markers to correct 135 scaffolds with one or more chimeric regions. The resulting v2.0 assembly spans 421.5 Mb and contains 4,907 scaffolds (N50 of 12.7 Mb), accounting for ∼90% of the estimated genome size of 473 Mb. The scaftig N50 of 31.2 kb is similar to those of other high-quality genome assemblies such as potato and pepper. About 86% (362 Mb) of the assembled genome is included in only 60 superscaffolds anchored to the nine pseudomolecules. The longest superscaffold spans 30.2 Mb, 85% of chromosome 4.

There are a few different naming schemes for this assembly. First there is the
Authors' original naming scheme: Sequences with DCARv2 prefix are the original assembly as submitted to NCBI. These are labelled DCARv2_Chr1 through DCARv2_Chr9 for the chromosome pseudomolecules, DCARv2_MT and DCARv2_PT for the organellar assemblies, DCARv2_B1 and up for unincorporated superscaffolds, DCARv2_S26.1 and up for unincorporated scaffolds, and DCARv2_C10542132 and up for unincorporated contigs. A file with sequences using this naming scheme can be downloaded from the File: link below.
These sequences can be viewed in JBrowse here.

Phytozome genome ID 388: The authors' sequences and gene predictions were also submitted to Phytozome, and can be accessed at this address: https://phytozome-next.jgi.doe.gov/info/Dcarota_v2_0

LNRQ01: These sequences were then assigned GenBank accession numbers starting at LNRQ01000001.1 which corresponds to DCARv2_Chr1, up to LNRQ01004826.1 which corresponds to an unincorporated contig, DCARv2_C10750146. These reside in bioproject PRJNA268187, which is a subproject of umbrella project PRJNA285926.

Assembly GCA_001625215.1: The genome assembly was later defined an accession number GCA_001625215.1 for assembly ASM162521v1 which consists of only the 9 chromosome sequences and the plastid assembly, which have accession numbers from CM004278.1 to CM004286.1 for the chromosomes and CM004358.1 for the plastid. The mitochondrial genome was not included because it is classified as an incomplete sequence.

RefSeq: The assembly was then later added to RefSeq, and there another new set of identifiers was defined from NC_030381.1 to NC_030389.1 for the chromosomes, and from NW_016089425.1 to NW_016094239.1 for unincorporated scaffolds and contigs. These reside in bioproject PRJNA326436. Note that NCBI substituted different assembled organellar genomes from different genotypes for the RefSeq records.

The NCBI Sequence report lists the correspondences between the various naming methods

Link to the LNRQ01000000.1 master record at NCBI

Raw Reads: Link to SRA accessions used for the genome assembly

This genome is available in the CarrotOmics Blast Search

This analysis is a blastp search of all of the DCAR V1.0 Gene Prediction polypeptide sequences against combined ExPASy SwissProt and TrEMBL databases from Nov. 17, 2021. Prior to performing the blast search, the database was filtered to remove organisms not in the Viridiplantae, and also filtered to remove these same DCAR gene predictions.

For gene model prediction, mobile element–related repeats were masked using RepeatMasker. De novo prediction using AUGUSTUS v2.5.5, GENSCAN v.1.1.0, and GlimmerHMM-3.0.1 was trained using model species A. thaliana and S. lycoperisum training sets. The protein sequences of S. lycoperisum, Solanum tuberosum, A. thaliana, Brassica rapa, and Oryza sativa were mapped to the carrot genome using TBLASTN (BLAST All 2.2.23) and analyzed with GeneWise version 2.2.0. Carrot ESTs were aligned to the genome using BLAT and analyzed with PASA to detect spliced gene models. RNA-seq reads from 20 DH1 libraries were aligned with TopHat 2.0.9. Transcripts were predicted by Cufflinks. All gene models produced by de novo prediction, protein homology searches, and prediction and transcript-based evidence were integrated using GLEAN v1.1. Putative gene functions were assigned using the best BLASTP match to SwissProt and TrEMBL databases. Gene motifs and domains were determined with InterProScan version 4.7 against the ProDom, PRINTS, Pfam, SMART, PANTHER, and PROSITE protein databases. GO IDs for each gene were obtained from the corresponding InterPro entries. All genes were aligned against KEGG (release 58) proteins.

Data from this analysis can be viewed in JBrowse here.

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