DCAR_029257

Resource Type: 
Polypeptide
Name: 
DCAR_029257
Identifier: 
DCAR_029257.mRNA-protein
Sequence: 
MDRFYGKRAVGGLCVPKNASLVSRDADNRNGDAQFCNRLGCSGRLKYTKA
PQIGSPRIPKPLRPSTRSTSAKESRGSISSTSSVVNIAKIRYPDSRRKLR
SEVEKETSDSSRSQNEIEIQELTDSQRTKGRGFQSEPRESESGIVPSVKV
RSSNVVSKARNPNSFYKRPGLTNQDALPSSSSSPSGSNDQGPSGSTNASR
QGLRSLRTSISAALRPGSSLSESNISKKKDIVKKRSPEREASSSSGGKNK
TSEQPSDGGHISNPTNGFTFPDHRRNRNLPSRRENGVTSAQSRRLPNSNT
RTGHPSLVNRTILSSAEASVFRRQMPRSERNIFANANSLREEASSGGSSS
YSHSSSGNYDDHVTTTPSADLGIARLVNRDGAQQYNMDNIAEEEYVAGDE
VGKIGCEHGYHMECIKQWLQLKNWCPICKASVEPRETS*
Sequence Length: 
439
Sequence Checksum: 
cb82528fb816099b9b3a875806361025
View location in JBrowse: 
Relationship: 
There is 1 relationship.
Relationships
The polypeptide, DCAR_029257, derives from mRNA, DCAR_029257.
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Blast Results: 
The following BLAST results are available for this feature:
BLAST of DCAR_029257 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_029257 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: M5XWH9 (RING-type domain-containing protein {ECO:0000259|PROSITE:PS50089})

HSP 1 Score: 237.269 bits (604), Expect = 2.062e-70
Identity = 181/497 (36.42%), Postives = 257/497 (51.71%), Query Frame = 0
 
Query:    1 MDRFYGKRAVGGLCVPKNASLVSRDADNRNGDAQFCNRLGCSGRLKYTKAPQIGSPRIPKPLRPSTRSTSA-KESRGSISSTSSVVNIAKIRYPDSRRKLRSEVEKETSDSSRSQNEIEIQELTDSQRTKGRGFQSEPRESESGIVPSVKVRSSNVVSKARNPNSFYKRPGLTNQDALPSSSSSPSGSNDQGPSGSTNASRQGLRSLRTSISAALRPGSSLSESNISKKKDIVKKRSPEREASSSSGGKNKTSEQPSDGGHISNPTNGFTFPDHRRNRNLPSRRENGVTSAQSRRLPNSNTRTGHP--SLVNR---TILSSAEASVFRRQMPRSERNIFANANS----LREEASSGGSSSYSH--SSSGNYDDHVTTTPSADLGIAR-LVNRDGAQQYNMDNIA--------------------------------------------------EEEYVAGDEVGKIGCEHGYHMECIKQWLQLKNWCPICKASVEP 434
            MD + GKRAV  L   K + LV R+  NR+ +AQ C+RLGCSGRL   K  QI   +     RP+ RSTS+ KE  GS S +   V   +    +  +KL S +E ++S++S  Q++ E+ EL        RG   EP+ +ES +V  ++V SS+V S  R+  SF +R GL NQD+L  S+ S SGS +   +   + +R GLR+LR +  + + P S  S  +   +++ +KKR  E E+SS++ GK       S  G  SN ++G +  D RR RN+PS R+NG  S ++RR     T TGH    L N+     LS+  + V   Q  + E +I  N+ S    L  EA     +SYS   SSSGN    +    +AD+G +R L+N+DG ++YNMD IA                                                  EEEYVAGDEVG++ CEH +H+ C+ QWL+LKNWCPICK +  P
Sbjct:    1 MDEYSGKRAVNRLVSKKGSGLVLRETPNRDRNAQLCSRLGCSGRLNTVKGAQI--EKAKSSSRPAFRSTSSGKEIIGSSSRSCIAVGNTRKSITEPCKKLSSNLETDSSETSSVQDDPEVSELAPPPGKIQRGLHPEPKNAESSVVTLMEVGSSDVASNTRSRKSFNQRSGLRNQDSLVGSNVS-SGSKNTSQATQASTTRNGLRNLRCNSISDIVPSSCSSSDSSLNRRETIKKRISEGESSSAARGKKMNGS--SSAGQNSNSSHGISISDSRRARNMPSNRDNGAASVRTRR-----TVTGHSRGRLSNQGSGNNLSANGSPVVGPQTSQPEMSINLNSPSSLQQLSHEAPLIRPNSYSRPGSSSGNLHS-IMRAGAADVGFSRSLMNQDGLRRYNMDGIAEVLLALERIEQDEELSFEQILVLETNLFLNGLNFYDQHRDMRLDIDNMSYEEEYVAGDEVGRLHCEHSFHVNCVNQWLRLKNWCPICKTAAAP 486    
BLAST of DCAR_029257 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2P5DIE2 ((43kDa postsynaptic protein {ECO:0000313|EMBL:PON73033.1}))

HSP 1 Score: 230.72 bits (587), Expect = 2.769e-68
Identity = 185/443 (41.76%), Postives = 254/443 (57.34%), Query Frame = 0
 
Query:    1 MDRFYGKRAVGGLCVPKNAS-LVSRDA-DNRNGDAQFCNRLGCSGRLKYTKAPQIGSPRIPKPLRPSTR-STSAKESRGSISSTSSVVNIAKIRYPDSRRKLRSEVEKETSDSSRSQNEIEIQELTDSQRTKGRGFQSEPRESESGIVPSVKVRSSNVVSKARNPNSFYKRPGLTNQDALPSSSSSPSGSNDQGPSGSTNASRQGLRSLRT-SISAALRPGSSLSESNISKKKDIVKKRSPEREASSSSGGKNKTSEQPSDGGHISNPTNGFTFPDHRRNRNLPSRRENGVTSAQSRRLPNSNTRTGHPSLVNRTILSSAEASVFRRQMPRSERNIFANANSLREEASSG-------GSSSYSHSSSGNYDDHVTTTPSADLGIAR-LVNRDGAQQYNMDNIAEEEYVAGDEVGKIGCEHGYHMECIKQWLQLKNWCPICKAS 431
            MD + GKRAV GL V +  S LV R++ +NR+   QFCNRLGC+GRL  TKA QIG     KPLRP  R S S KE  GS S TS+ V+  +     S +KL + +E ++S+SS  Q+E E+ +         RG   E + +ES  V  ++V SS+  + A++  +F +R G +NQ  L   S+S +GS +        A+R GLR+LR  SIS  +    S S+ + +K+ + +KKR+ E E+SS++ GK       S  G  S+ +NG +  D RR RN+P  R++ V S ++RR  NS TRT      N   +S  E+ V   Q  RS   IF + +    E  S         S   S SSS N    + + P A++G +R LVNRD  ++YNMD IAEEEYV GDEVG++ CEH YH  CI+QWL+LKNWCPICKAS
Sbjct:    1 MDEYSGKRAVDGLVVSRKGSGLVLRESPNNRDSSTQFCNRLGCNGRLNSTKATQIGKS---KPLRPPVRASCSGKEIIGSSSRTSASVSNPRKSISASCKKLSAHLETDSSESSSVQDEPEVSDPIPPPGKIQRGLNVE-KTAESSEVSLMEVGSSSAAANAQSRRNFNQRSGWSNQATLVGPSAS-TGSKNISMKTQAGATRYGLRNLRCNSISDVVPSNCSSSDVSFTKRSETIKKRNSEGESSSTARGKKING---SLSGQNSS-SNGVSISDSRRGRNVPPNRDDTVASVRTRRSVNSQTRTRLSIQGNGNNISRNESPVVIPQ--RSHPEIFIDMSPGSSELLSTEAPLIRTNSCGRSGSSSENIRSSLQSGP-AEVGFSRSLVNRDNLRRYNMDGIAEEEYVGGDEVGRLQCEHSYHAVCIQQWLRLKNWCPICKAS 431    
BLAST of DCAR_029257 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2P5G1C9 ((43kDa postsynaptic protein {ECO:0000313|EMBL:POO03832.1}))

HSP 1 Score: 228.794 bits (582), Expect = 1.734e-67
Identity = 186/444 (41.89%), Postives = 257/444 (57.88%), Query Frame = 0
 
Query:    1 MDRFYGKRAVGGLCVPKNAS-LVSRDA-DNRNGDAQFCNRLGCSGRLKYTKAPQIGSPRIPKPLRPSTR-STSAKESRGSISSTSSVVNIAKIRYPDSRRKLRSEVEKETSDSSRSQNEIEIQELTDSQRTKGRGFQSEPRESESGIVPSVKVRSSNVVSKARNPNSFYKRPGLTNQDALPSSSSSPSGSNDQGPSGSTNASRQGLRSLRT-SISAALRPGSSLSESNISKKKDIVKKRSPEREASSSSGGKNKTSEQPSDGGHISN---PTNGFTFPDHRRNRNLPSRRENGVTSAQSRRLPNSNTRTGHPSLVNRTILSSAEASVFRRQMPRSERNIFANANS---LREEASSGGSSSY--SHSSSGNYDDHVTTTPSADLGIAR-LVNRDGAQQYNMDNIAEEEYVAGDEVGKIGCEHGYHMECIKQWLQLKNWCPICKAS 431
            MD + GKRAV GL V +  S LV R++ +NR+ + QFCNRLGC+GRL  TKA QI      KPLRPS R S S KE  GS S TS+ V+  +     S +KL S +E ++S++S  Q+E E+ +         RG   E + + S  V  ++V SS+V + AR+  +F +R G +NQ  L   S S +GS +        A+R GLR+LR  SIS  +    S S+ + +K+++ +K+R+ E E+SS++ GK          G +S     +NG +  D RR RN+P  R+N V S ++RR  NS TRT      N   +S  E+ V   Q    E +I  +  S   L  EA    ++SY  S SSS N    + + P A++G +R LVNRD  ++YNMD IAEEEYV GDEVG++ CEH YH  CI+QWL+LKNWCPICKAS
Sbjct:    1 MDEYSGKRAVDGLVVSRKGSGLVLRESPNNRDSNTQFCNRLGCNGRLNSTKATQIAKS---KPLRPSVRPSCSGKEIIGSSSRTSASVSNPRKSISASCKKLSSHLETDSSETSSVQDEPEVSDPIPPPGKIQRGLNVE-KNAGSREVSLMEVGSSSVAANARSRRNFNQRYGWSNQATLVGPSVS-TGSKNISMKTQAGATRYGLRNLRCNSISDVVPSNCSSSDVSFTKRRETIKRRNSEGESSSTARGKKIN-------GSLSGQNSSSNGISISDSRRGRNVPPNRDNSVASVRTRRSVNSQTRTRLSIQGNGNNISRNESPVVIPQRSHPEISIDMSPGSSELLSTEAPLIRTNSYGRSGSSSENIRSSLQSGP-AEVGFSRSLVNRDNLRRYNMDGIAEEEYVGGDEVGRLQCEHSYHAVCIQQWLRLKNWCPICKAS 431    
BLAST of DCAR_029257 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5A8R1 (RING-type domain-containing protein {ECO:0000259|PROSITE:PS50089})

HSP 1 Score: 229.95 bits (585), Expect = 4.881e-67
Identity = 179/402 (44.53%), Postives = 237/402 (58.96%), Query Frame = 0
 
Query:    1 MDRFYGKRAVGGLCVP-KNASLVSRDA-DNRNGDAQFCNRLGCSGRLKYTKAPQIGSPRIPKPLRPSTRSTSAKESRGSISSTSSVVNIAKIRYPDSRRKLRSEVEKETSDSSRSQNEIEIQELTDSQRTKGRGFQSEPRESESGIVPSVKVRSSNVVSKARNPNSFYKRPGLTNQDALPSSSSSPSGSNDQGPSGSTNASRQGLRSLRT-SISAALRPGSSLSESNISKKKDIVKKRSPEREASSSSGGKNKTSEQPSDGGHISNPTNGFTFPDHRRNRNLPSRRENGVTSAQSRRLPNSNTRTGHPSLVNRTILSSAEASVFRRQMPRSERNIFA----NANSLREEASSGGSSSYSHSS--SGNYDDHVTTTPSADLGIAR-LVNRDGAQQYNMDNIAE 392
            MD F GKRAVGGL +P K A +  RD  D  + + QFCNR+GC+GRL +TK  QIG    PK  R   RS+S KE  GS   T SVV  A+  + +SR+KL S+ E E+S++S  Q+E E+ E   S R    GFQSE +E+ESG V  ++V SS++ S +R      ++ GL NQD L  +S S +  + QGP  S NA+R GLR+LR  SIS  L  G S SE N+S++KDIVKKR+PE E+SSS+ G  K      + GH S  TNG +  D RR RN   RR+NGVTS ++RR  N NTRT   +  N   LS  E+     Q+P+S+  + A    +++    EAS   S+SYS     S +    +   P A+LGI    VN DG ++YNMD IAE
Sbjct:    1 MDAFSGKRAVGGLVIPRKGAGITLRDTTDKSDQNVQFCNRIGCNGRLNHTKGSQIGCSGKPKSSRSPFRSSSGKEIIGSSIKTCSVVTSARKSFQESRKKLSSQSETESSETSSVQDEPEVSE-PPSLRKIQMGFQSELKETESGEVRLIEVGSSSIESNSRPQKILRQKSGLGNQDTLSGASVSTASKSSQGPRNSANANRYGLRNLRCNSISDVLPSGCSSSEPNLSRRKDIVKKRNPEGESSSSAVGGKKNIGASFEDGHSSVSTNGISIYDSRRARNWLPRRDNGVTSVRTRRSINDNTRTRIANQGNGNNLSLTESLHVTPQVPQSDMPVGAYVPSSSHQYSAEASLSRSNSYSRPGRISSSLPSLMPIGP-AELGITHSSVNHDGLRRYNMDGIAE 400    

HSP 2 Score: 86.2705 bits (212), Expect = 1.806e-15
Identity = 36/64 (56.25%), Postives = 42/64 (65.62%), Query Frame = 0
 
Query:  380 DGAQQYNMD------NIAEEEYVAGDEVGKIGCEHGYHMECIKQWLQLKNWCPICKASVEPRET 437
            DG    N D      +I +EEYV G EVGK+ CEHGYH+ CI QWLQ KNWCPICK S  P ++
Sbjct:  487 DGTMDCNGDEDDSKCSICQEEYVVGVEVGKLECEHGYHVVCIHQWLQQKNWCPICKTSAAPSQS 550    
BLAST of DCAR_029257 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A4S4DE34 (RING-type domain-containing protein {ECO:0000259|PROSITE:PS50089})

HSP 1 Score: 219.164 bits (557), Expect = 8.943e-64
Identity = 179/473 (37.84%), Postives = 253/473 (53.49%), Query Frame = 0
 
Query:    1 MDRFYGKRAVGGLCVP-KNASLVSRDA-DNRNGDAQFCNRLGCSGRLKYTKAPQIGSPRIPKPLRPSTRSTSAKESRGSISSTSSVVNIAKIRYPDSRRKLRSEVEKETSDSSRSQNEIEIQELTDSQRTKGRGFQSEPRESESGIVPSVKVRSSNVVSKARNPNSFYKRPGLTNQD-----ALPSSSSSPSGSNDQGPSGSTNASRQGLRSLRT-SISAALRPGSSLSESNISKKKDIVKKRSPEREASSSSGGKNKTSEQPSDGGHISNPTNGFTFPDHRRNRNLPSRRENGVTSAQSRRLPNSNTRTGHPS-LVNRTILSSAEASVF--RRQMPRSERNIFANANSLREEASSGGSSSYSHSSSGNYDD---------------------------HVTTTPS-ADLGIARLVNRDGAQQYNMDNIAEEEYVAGDEVGKIGCEHGYHMECIKQWLQLKNWCPICKASVEP 434
            M+ + GKRAV GL VP K + LV RDA ++++ +AQFCNR GC GRLK+TK+ Q G     K  RP  +++S KE  GS S T SVV   +  +  S++KL S++E ++S++S  ++     ++  S      G       +ESG V S++V SS++ S +R P  F  +  + ++D     A+P +S SP      GP  S +AS+ GLR+ R  S S A+  G SLSESN++++KD++KKR+PE E+S S  GK KT    S+  H S  T G +  D RR RN        V S  ++R  N N R    S   N   LS  E  V   R Q+P+ E  +  +  S   + SS   +S S S+S ++DD                           + TTTP    +G +     DG +     +I +EEY  GDEVG++GCEHG+HM CI QWL+LKNWCPICK S  P
Sbjct:    1 MEEYSGKRAVDGLVVPRKRSGLVLRDAAESKDTNAQFCNRRGCKGRLKHTKSEQSGLSEKSKSTRPPFQASSGKEIIGSSSGTCSVVPNTRKSFQVSQKKLSSQLETDSSETSSVRDGPVGSDVVSSPGRAQIG-------TESGKVRSIEVGSSSIASNSRPPKVFRPKSAIDSRDSPLGPAVPLASKSPC----PGPRNSASASKYGLRNNRCNSTSDAVTSGCSLSESNLTRRKDMMKKRNPEIESSFSVRGK-KTIGPLSEDNHSSTSTYGISISDSRRARN----SSQSVGSVWTQRSVNGNNRASVSSNRKNGNRLSPTELHVVAPRPQVPQRELPVAVDVQSSSHQFSS--EASSSRSTSFSHDDGLPRYNMDGITEVLSTLERMEQDEEITYATTTPEEGTMGCSE----DGDEDDTKCSICQEEYAIGDEVGRLGCEHGFHMSCINQWLRLKNWCPICKTSAGP 451    
BLAST of DCAR_029257 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5N6R663 (RING-type domain-containing protein {ECO:0000259|PROSITE:PS50089})

HSP 1 Score: 218.779 bits (556), Expect = 1.063e-63
Identity = 182/468 (38.89%), Postives = 256/468 (54.70%), Query Frame = 0
 
Query:    1 MDRFYGKRAVGGLCVPKNAS-LVSRD-ADNRNGDAQFCNRLGCSGRLKYTKAPQIGSPRIPKPLRPSTRSTSA-KESRGSISSTSSVVNIAKIRYPDSRRKLRSEVEKETSDSSRSQNEIEIQELTDSQRTKGRGFQSEPRESESGIVPSVKVRSSNVVSKARNPNSFYKRPGLTNQDALPSSSSSPSGSNDQGPSGSTNASRQGLRSLRT-SISAALRPGSSLSESNISKKKDIVKKRSPEREASSSSGGKNKTSEQPSDGGHISNPTNGFTFPDHRRNRNLPSRRENGVTSAQSRRLPNSNTRTGHPSLVNRTILSSAEASVFRRQMPRS-ERNIFANANSLREEASSGGSSSYSHSSSGNYDDH-VTTTPSADLGIAR-LVNRDGAQQYNMDNIAE-----------------------------EEYVAGDEVGKIGCEHGYHMECIKQWLQLKNWCPICKASV 432
            MD + GKRAV G+ VP+  S LV RD A+NR+ +AQFCNR GCSGRL  T+  Q G     K  RP  RS+S+ KE  GS S T S V+  +    + ++KL S++E ++S++S  Q+E E+ ELT       RG  SE  ES S  V  ++  SS+V S  R+  + +   GL NQD + +S  S  GS   G      ASR GLR+LR  SIS  +  G    +S++SK+KD+VKKR+ E E+SS++ GK       S  G  SN +NG +  D RR RNLP  R+ G+ S ++RR  N +TR    +  N   L   E+ +   QM R    N  ++++ L  E     ++SYS   S +   H +     A++G  + L N D  ++YN+D IAE                             EEYV GDE+G++ C+H YH++CI++WL+LKNWCPICKAS 
Sbjct:    1 MDEYSGKRAVDGIVVPRKGSGLVLRDNANNRDHNAQFCNRTGCSGRLSSTRGAQNGCSEKAKSSRPLVRSSSSGKEIIGSSSRTCSAVSKGRKPITEPQKKLSSKLESDSSETSSVQDEPEVSELTAPPGKFQRG--SETAESRSFTV--MEAGSSSVASDTRSRRNLHPGAGLRNQDTVVASPVS-MGSTSAG------ASRYGLRNLRCNSISDVVPSGCPSLDSSLSKRKDMVKKRNSEGESSSTARGKKMNGS--SLEGRNSNSSNGISISDSRRARNLPVHRDTGIASVRTRRSVNDHTRGRLSNQGNGNSLPPNESPIAIPQMLRPINVNGPSSSHHLSSETPLSRATSYSRPGSRSERLHGLMPADPAEVGRTQSLPNPDSIRRYNIDGIAERSIYEPAAPEDAAVGCSEHKDDVKCSICQEEYVVGDELGRLQCKHRYHVDCIQEWLRLKNWCPICKASA 455    
BLAST of DCAR_029257 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7A9A8 ((Putative E3 ubiquitin-protein ligase RLIM {ECO:0000313|EMBL:MPA53412.1}) (2.3.2.27 {ECO:0000313|EMBL:MPA53412.1}))

HSP 1 Score: 216.468 bits (550), Expect = 7.435e-62
Identity = 177/410 (43.17%), Postives = 237/410 (57.80%), Query Frame = 0
 
Query:    1 MDRFYGKRAVGGLCVPKNAS-LVSRDAD-NRNGDAQFCNRLGCSGRLKYTKAPQIGSPRIPKPLRPSTRSTSAKESRGSISSTSSVVNIAKIRYPDSRRKLRSEVEKETSDSSRSQNEIEIQELTDSQRTKGRGFQSEPRESESGIVPSVKVRSSNVVSKARNPNSFYKRPGLTNQDALPSSSSSPSGSND--QGPSGSTNASRQGLRSLRT-SISAALRPGSSLSESNISKKKDIVKKRSPEREASSSSGGKNKTSEQPSDGGHISNPTNGFTFPDHRRNRNLPSRRENGVTSAQSRRLPNSNTRTGHPSLVNRTILSSAEASVFRRQMPRSERNIFANA----NSLREEASSGGSSSYSHSSSGNYDDHVTTTPS--ADLGIAR-LVNRDGAQ---QYNMDNIAEEEY 395
            MD + GKRAV    VP+  S  V RD   NR+ +AQFCNR+GC+GRL YTK  Q+G     K  R S  S+S+KE  GS + T SVV  A+  + +SR+ L S +EK++S+ S  Q+E E+ EL    + +   FQSE ++++SG V  ++V SS++ S +R    F ++ GL NQD L   SS P  SN   QG   + NASR GLR+LR  SIS  L  G S SESN+S++KD VKKR+PE E SSS+ GK  +     D G  S  T+G +  D RR RN P  R+NGV S ++R+  N NTRT   +  N   LS  E+ +   Q+P+ E  I A+     +    EAS   S+SYS   S + D+     P   A+LGI R L NRDG Q   +YNMD IAE  +
Sbjct:    1 MDEYSGKRAV----VPRKGSGPVLRDTTGNRDQNAQFCNRIGCNGRLNYTKGSQLGCSEKLKSSRSSFHSSSSKEIIGSSTKTLSVVTNARKSFQESRKNLSSHLEKDSSEISSVQDETEVSELPSPGQIR---FQSELKDAKSGEVRLMEVGSSSIASNSRPRKIFRQKSGLGNQDTLL-GSSIPLASNSSCQGTRYNANASRYGLRNLRCNSISDVLPSGCSSSESNLSRRKDTVKKRNPEGEISSSARGKKNSGPSFKD-GRSSVSTSGISISDSRRARNWPPSRDNGVASIRTRKSINGNTRTRLSNQGNGNNLSLTESLLVTPQVPQPEIPIGASVPSSSHQYLAEASPSCSNSYSRPGSNSSDNLPNLMPIGPAELGITRSLANRDGLQALRRYNMDVIAEVLF 401    

HSP 2 Score: 90.5077 bits (223), Expect = 6.658e-17
Identity = 36/59 (61.02%), Postives = 45/59 (76.27%), Query Frame = 0
 
Query:  380 DGAQQYNMDNIAEEEYVAGDEVGKIGCEHGYHMECIKQWLQLKNWCPICKASVEPRETS 438
            +G +  N  +I +EEYV GDEVG++ C+HGYHM CI QWLQLKN CPICKAS  P ++S
Sbjct:  488 NGDEDDNKCSICQEEYVVGDEVGRLECKHGYHMVCIHQWLQLKNLCPICKASAVPSQSS 546    
BLAST of DCAR_029257 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A0B0MGY5 (RING-type domain-containing protein {ECO:0000259|PROSITE:PS50089})

HSP 1 Score: 210.305 bits (534), Expect = 1.848e-60
Identity = 178/460 (38.70%), Postives = 254/460 (55.22%), Query Frame = 0
 
Query:    1 MDRFYGKRAVGGLCVPKNAS--LVSRDADNRNGDAQFCNRLGCSGRLKYTKA-PQIGSPRIPKPLRPSTRSTSAKESRGSISSTSSVVNIAKIRYPDSRRKLRSEVEKETSDSSRSQNEIEIQELTDSQRTKGRGFQSEPRESESGIVPSVKVRSSNVVSKARNPNSFYKRPGLTNQDALPSSSSSPSGSNDQGPSGST--NASRQGLRSLR-TSISAALRPGSSLSESNISKKKDIVKKRSPEREASSSSGGKNKTSEQPSDGGHISNPTNGFTFPDHRRNRNLPSRRENGVTSAQSRRLPNSNTRTGHPS-LVNRTILSSAEASVFRRQMPRSERNIFANANSLREEASSGGSSSYSH--SSSGNYDDHVTTTPSADLGIAR-LVNRDGAQQYNMDNIAE-----------------EEYVAGDEVGKIGCEHGYHMECIKQWLQLKNWCPICKASVE 433
            MD F GKRAV G  V    S  ++    +NR  +AQFCNR+GCSGRL  +K  P   S +          S+S KE  G+ S  SSV++  +    + ++KL S++E ++S++S  Q+E E+ EL        RG   E  +++S     ++V SS+VVS  R    F +R GL NQ+ L    +SPS    QG S ++  N S+ GLR+LR +SIS  +  G S S+S++SKKKD+VKKR+ + EASSS+ GK  +    S  G  ++  +G +  D RR RN P  R++ V S+   R  NS+   G PS   N   LS  ++ +    +P+S+     NA  +  E  S   S Y    S S      + ++PS ++G+ R LVNRD  Q+YNMD IAE                 EEYV GDEVG++ CEH YH+ C++QWL++KNWCPIC+AS E
Sbjct:    1 MDGFAGKRAVDGPVVHGKGSGRILKDHVNNRERNAQFCNRIGCSGRLNSSKGTPNGCSDKAKSARSSYHSSSSGKEVIGNSSRVSSVISNTRKSTTNPQKKLPSQLETDSSETSSIQDEPEVSELIPPPGKIQRGLHHEAEDADSRDATVMEVGSSSVVSNTRPMRKFIQRAGLGNQETL----ASPS----QGASQASRSNTSKYGLRNLRCSSISDVVLTGCSSSDSSLSKKKDMVKKRNSDEEASSSARGKKLSGS--SLEGRNNSSGHGVSISDSRRARNWPPNRDSTVASSVRTRRSNSSYVRGRPSNQTNGNSLSLNQSPIVMPLVPQSDIPNDLNA-PVSTETVSTLVSPYGQAGSISEGLRSIMQSSPS-EVGVNRTLVNRDSFQRYNMDGIAEVLLALQRIEQDEELTYEEEYVNGDEVGRVQCEHTYHVACVQQWLRVKNWCPICRASAE 448    
BLAST of DCAR_029257 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A0B0PG16 ((E3 ubiquitin-protein ligase RLIM {ECO:0000313|EMBL:KHG23905.1}))

HSP 1 Score: 202.216 bits (513), Expect = 1.689e-57
Identity = 169/448 (37.72%), Postives = 249/448 (55.58%), Query Frame = 0
 
Query:    1 MDRFYGKRAVGGLCVP-KNASLVSRD-ADNRNGDAQFCNRLGCSGRLKYTKAPQIGSPRIPKPLRPSTRSTS-AKESRGSISSTSSVVNIAKIRYPDSRRKLRSEVEKETSDSSRSQNEIEIQELTDSQRTKGRGFQSEPRESESGIVPSVKVRSSNVVSKARNPNSFYKRPGLTNQDALPSSSSSPSGSNDQGPSGSTNASRQGLRSLRT-SISAALRPGSSLSESNISKKKDIVKKRSPEREASSSSGGKNKTSEQPSDGGHISNPTNGFTFPDHRRNRNLPSRRENGVTSAQSRRLPNSNTRTGH-PSLVNRTILSSAEASVFRRQMPRSERNIFANANSLREEASSGGSSSYSHSSSGNYDDH----VTTTPS-ADLGIARLVNRDGAQQYNMDNIAEEEYVAGDEVGKIGCEHGYHMECIKQWLQLKNWCPICKASVEPRETS 438
            MD +  KRA  GL VP K + ++ +D  +NR  +AQFCNR+GCSGRL   K    G     K LRPS R++S  KE  GS S   S    ++    + ++KL S++E ++S++S  Q+E E  EL        RG Q    ++ S  V  ++V SS+  S  R   SF +R GL NQDAL   S + + S     +   NASR  LR+++  SIS  +  G S S+S++S++KD VKKR+ + E SSS+ GK  +    S  G  +  ++  +  D RR RN     ++ V S+   R  +S+   G  P+  N +IL+  E  V   Q+P++   I  NA    E   +G + + S+  +G   +     + + PS A + ++ +   D  ++YNMD IAEEEYV GDEVG++ CEH YH+ CI+QWLQ+KNWCPICKAS E  ++S
Sbjct:    1 MDGYTSKRAADGLVVPGKGSGIILKDHVNNRERNAQFCNRIGCSGRLNSMKGTLSGCSEKAKSLRPSYRTSSIGKEIIGSSSRVYSAPINSRKSSTNPQKKLSSQLETDSSETSSVQDEPEGSELISPPGKIQRGLQPGADDAASREVRVMEVGSSSTASNTRPRRSFSQRSGLGNQDALAGPSVTLA-SRSASLATRANASRYSLRNIKCNSISDVVPSGCSSSDSSLSRRKDTVKKRNADGEGSSSTKGKKLSGS--SLEGRSNVSSHSVSISDSRRARNWSPNSDSSVASSIRTRRSSSSYGRGRLPNQDNGSILTLNEPPVVMPQVPQAAVTIDLNAPVSTE---TGSTCAISYGRAGRISESLHSIIPSIPSEAGINLSSMTG-DSFRRYNMDGIAEEEYVVGDEVGRLLCEHRYHVGCIQQWLQVKNWCPICKASAEAMQSS 441    
BLAST of DCAR_029257 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J4ZVH6 (RING-type domain-containing protein {ECO:0000259|PROSITE:PS50089})

HSP 1 Score: 202.986 bits (515), Expect = 9.257e-57
Identity = 169/402 (42.04%), Postives = 230/402 (57.21%), Query Frame = 0
 
Query:    1 MDRFYGKRAVGGLCVP-KNASLVSRDA-DNRNGDAQFCNRLGCSGRLKYTKAPQIGSPRIPKPLRPSTRSTSAKESRGSISSTSSVVNIAKIRYPDSRRKLRSEVEKETSDSSRSQNEIEIQELTDSQRTKGRGFQSEPRESESGIVPSVKVRSSNVVSKARNPNSFYKRPGLTNQDALPSSS-SSPSGSNDQGPSGSTNASRQGLRSLRT-SISAALRPGSSLSESNISKKKDIVKKRSPEREASSSSGGKNKTSEQPSDGGHISNPTNGFTFPDHRRNRNLPSRRENGVTSAQSRRLPNSNTRTGHPSLVNRTILSSAEASVFRRQMPRSERNIFANANSLREEASSGGSS---SYSH--SSSGNYDDHVTTTPSADLGIA-RLVNRDGAQQYNMDNIAE 392
            MD++ GKRAVGGL +P K + LV RDA D R+ +AQFCNR+GC+GRL YTK  QIG    PK  R S  S+S KE   S + T SVV  A+  +  SR+KL S++E +TS++S  Q+E E+ E    ++ +  GFQS  ++S+ G V   +    ++ S  R      ++ GL  QD L  SS    S S   G   + NASR GLR+LR  SIS  L  G S SE  +S++KD+VKK+  E E SSS  GK +  E  S+    S  TNG +  D RR RN P  R+NGV S +++R+ N NTRT   +  N   LS +E+ +   Q+P+ +  I  N +S   + S+  SS   SYSH  SSSGN    +   P A+ GI+   VN    ++YNMD IAE
Sbjct:    1 MDKYSGKRAVGGLFIPRKRSGLVLRDATDTRDRNAQFCNRIGCNGRLNYTKGTQIGCSEKPKSSRSSFHSSSGKEIIESCTRTCSVVTSARKSFQKSRQKLSSQLETDTSETSSVQDEPEVSERPSPEKIQ-IGFQSGLKDSQFGEVNLTEAGCFSMASNNRPRKILGQKSGLGKQDTLLHSSIPLASKSTYYGARNNANASRYGLRNLRCNSISDFLPTGISSSEPKLSRRKDMVKKKISEGERSSSVRGK-RNIEPSSENRRSSVSTNGISICDSRRARNWPPSRDNGVASVRTQRI-NGNTRTRLSNQGNGNNLSLSESLLVIPQVPQPDIAISENVSSSSHQFSAEASSHSNSYSHPGSSSGNLPSMMPMGP-AEFGISGSSVNHVDFRRYNMDGIAE 398    

HSP 2 Score: 90.1225 bits (222), Expect = 8.948e-17
Identity = 35/59 (59.32%), Postives = 45/59 (76.27%), Query Frame = 0
 
Query:  380 DGAQQYNMDNIAEEEYVAGDEVGKIGCEHGYHMECIKQWLQLKNWCPICKASVEPRETS 438
            +G +  N  +I +EEYV GDE G++ CEHGYH  CI+QWL+LKNWCPICKAS  P ++S
Sbjct:  491 NGEEDDNKCSICQEEYVVGDETGRLECEHGYHGVCIQQWLRLKNWCPICKASAVPAQSS 549    
Match NameStatsDescription
M5XWH9E-Value: 2.062e-70, PID: 36.42RING-type domain-containing protein {ECO:0000259|P... [more]
A0A2P5DIE2E-Value: 2.769e-68, PID: 41.76(43kDa postsynaptic protein {ECO:0000313|EMBL:PON7... [more]
A0A2P5G1C9E-Value: 1.734e-67, PID: 41.89(43kDa postsynaptic protein {ECO:0000313|EMBL:POO0... [more]
A0A5J5A8R1E-Value: 4.881e-67, PID: 44.53RING-type domain-containing protein {ECO:0000259|P... [more]
A0A4S4DE34E-Value: 8.943e-64, PID: 37.84RING-type domain-containing protein {ECO:0000259|P... [more]
A0A5N6R663E-Value: 1.063e-63, PID: 38.89RING-type domain-containing protein {ECO:0000259|P... [more]
A0A5B7A9A8E-Value: 7.435e-62, PID: 43.17(Putative E3 ubiquitin-protein ligase RLIM {ECO:00... [more]
A0A0B0MGY5E-Value: 1.848e-60, PID: 38.70RING-type domain-containing protein {ECO:0000259|P... [more]
A0A0B0PG16E-Value: 1.689e-57, PID: 37.72(E3 ubiquitin-protein ligase RLIM {ECO:0000313|EMB... [more]
A0A5J4ZVH6E-Value: 9.257e-57, PID: 42.04RING-type domain-containing protein {ECO:0000259|P... [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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