DCAR_003139

Resource Type: 
Polypeptide
Name: 
DCAR_003139
Identifier: 
DCAR_003139.mRNA-protein
Sequence: 
MADSQHSARSSTVTVNDGDDEVSGGFLPLASGPQQPYEPELLRVDAERIE
KQMQEVAVSNYRAFISAADALLAVRQEVSSIDKHLTSMIAEIPKLTSGCT
EFIDSAEQILEKRKLNQTLLSNHSTLLDLLEIPQLMDTCVRNGNYDEALD
LETFVGKLSTMHPKLPVIQALAAEVKHTTQSLLTQLLQKLRSNIQLPECL
RIIGYLRRIGVYSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVN
CHRMHLFDVVNQYRAIFADDTSGSEENHDGGLLFSWATHQITSHLKMLKV
MLPKIAEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSK
NMGTAVENFQLVLDSHRWVPLPAVGFSANSFGDENQEDVTPPPNLMDHPP
LAVFVNGVSAAMNELRPCAPIRLKYIIAQELIKGLRAVSDSLLRYNTTRM
LRENESVLFLSLCRSFTEVAFPHCATCFGRCYVGGASLITDSKGLFDGIN
RLVAASISRDLPKPVNNSENKNTTENGEAPPAENGVIDNGGQTESLGAVE
KEEHDTSPQTEEKPVNDDATRA*
Sequence Length: 
573
Sequence Checksum: 
bd59425bec8a0c0f89c171b36872de52
View location in JBrowse: 
DCARv2_Chr1:36160126..36168425-
Organism: 
Daucus carota subspecies sativus
Relationship: 
There is 1 relationship.
Relationships
The polypeptide, DCAR_003139, derives from mRNA, DCAR_003139.
Blast Results: 
The following BLAST results are available for this feature:
BLAST of DCAR_003139 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
[Close]
BLAST of DCAR_003139 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6I9TD67 (Conserved oligomeric Golgi complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415} (COG complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415}) (Component of oligomeric Golgi complex 8 {ECO:0000256|PIRNR:PIRNR015415}))

HSP 1 Score: 917.916 bits (2371), Expect = 0.000e+0
Identity = 452/572 (79.02%), Postives = 500/572 (87.41%), Query Frame = 0
 
Query:   19 DDEVSGG---FLPLASGPQQPY--------------EPELLRVDAERIEKQMQEVAVSNYRAFISAADALLAVRQEVSSIDKHLTSMIAEIPKLTSGCTEFIDSAEQILEKRKLNQTLLSNHSTLLDLLEIPQLMDTCVRNGNYDEALDLETFVGKLSTMHPKLPVIQALAAEVKHTTQSLLTQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENHDGGLLFSWATHQITSHLKMLKVMLPKIAEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMGTAVENFQLVLDSHRWVPLPAVGFSANSFGDENQEDVTPPPNLMDHPPLAVFVNGVSAAMNELRPCAPIRLKYIIAQELIKGLRAVSDSLLRYNTTRMLRENESVLFLSLCRSFTEVAFPHCATCFGRCYVGGASLITDSKGLFDGINRLVAASISRDLPKPVNNSENKNTTENGEAPPAENGVIDNGGQTESLGAVEKEEHDTSPQTEEK-PVNDDATRA 572
            DD+VS      LPLAS  QQPY              EPELLRVDAERI +QMQEVAV NYRAFI+AADALL +R+EVS+IDKHL S+IAEIP LTSGCTEF+DSAE ILEKRK+NQTLL+NHSTLLDLLEIPQLMDTCVRNGNYDEALDLE FVGKL+TMHP +PVIQALA EV+ TTQSLL+QLLQKLRSNIQLPECLRIIGYLRRIGV+SEYEMRLQFLRCREAWLTG LDDLDQRN YEYLKGM+NCHRMHLFDVVNQYRAIFADDTSG+EEN+DGGLLF WA HQIT HLK LKVMLPKI EGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLF+KNM TAVENFQLVLDSHRWVPLPAVGF ANS G+E+Q+D+TPP +LM+HPPLAVF+NGVSAAMNELRPCAP+ LK ++AQEL+KGL+AVSDSLLRYNTTRMLR+NESVLFL LC+SF EVAFPHCATCF RCY GGA+LITDSK LFDGI+RL+A S SR+LPKPV+N+E KN  ENG +P  ENGV+    +T SL   EKE+++ SPQ EEK  + +DA R+
Sbjct:   12 DDDVSAAMSNLLPLASAAQQPYVSELLSFTLDRLHKEPELLRVDAERIRRQMQEVAVGNYRAFIAAADALLEIREEVSAIDKHLESLIAEIPTLTSGCTEFVDSAEHILEKRKMNQTLLANHSTLLDLLEIPQLMDTCVRNGNYDEALDLEAFVGKLTTMHPNIPVIQALATEVQQTTQSLLSQLLQKLRSNIQLPECLRIIGYLRRIGVFSEYEMRLQFLRCREAWLTGTLDDLDQRNPYEYLKGMINCHRMHLFDVVNQYRAIFADDTSGNEENYDGGLLFDWAMHQITLHLKSLKVMLPKITEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFAKNMSTAVENFQLVLDSHRWVPLPAVGFPANSLGEESQDDITPPSSLMEHPPLAVFINGVSAAMNELRPCAPLNLKNVLAQELVKGLQAVSDSLLRYNTTRMLRDNESVLFLKLCQSFIEVAFPHCATCFNRCYPGGAALITDSKNLFDGISRLLATSTSRELPKPVHNTEAKNVAENGNSPTVENGVLHGVERTASLSPEEKEQNNVSPQKEEKTTIREDAQRS 583
[Close]
BLAST of DCAR_003139 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2G9HVK9 (Conserved oligomeric Golgi complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415} (COG complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415}) (Component of oligomeric Golgi complex 8 {ECO:0000256|PIRNR:PIRNR015415}))

HSP 1 Score: 915.605 bits (2365), Expect = 0.000e+0
Identity = 452/571 (79.16%), Postives = 495/571 (86.69%), Query Frame = 0
 
Query:   18 GDDEVS---GGFLPLASGPQQPY--------------EPELLRVDAERIEKQMQEVAVSNYRAFISAADALLAVRQEVSSIDKHLTSMIAEIPKLTSGCTEFIDSAEQILEKRKLNQTLLSNHSTLLDLLEIPQLMDTCVRNGNYDEALDLETFVGKLSTMHPKLPVIQALAAEVKHTTQSLLTQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENHDGGLLFSWATHQITSHLKMLKVMLPKIAEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMGTAVENFQLVLDSHRWVPLPAVGFSANSFGDENQEDVTPPPNLMDHPPLAVFVNGVSAAMNELRPCAPIRLKYIIAQELIKGLRAVSDSLLRYNTTRMLRENESVLFLSLCRSFTEVAFPHCATCFGRCYVGGASLITDSKGLFDGINRLVAASISRDLPKPVNNSENKNTTENGEAPPAENGVIDNGGQTESLGAVEKEEHDTSPQTEEKPVNDDATR 571
             +D+VS      LPLAS  QQPY              EPELLRVDAERI +QMQEVAV NYRAFI+AADALL +R+EVSSIDKHL S+IAEIPKLT+GCTEF+DSAE ILEKRK+NQTLL+NHSTLLDLLEIPQLMDTCVRNGNYDEALDLE FV KL+TMHPK+PVIQALAAEV+ TTQSLL+QLLQKLRSNIQLPECLRIIGYLRRIGV+SEYEMRLQFLRCREAWLTG+LDDLDQRN YEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEEN+DGGL+F WA HQIT HL  LKVMLPKI+EGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNM TAVENFQLVLDSHRWVPLPAVGF ANS G+E+QEDVTPP NLM+HPPLAVF+NGVSAAMNELRPCAPI LK ++AQELIKGL+AVSDSLLRYNTTRMLR NESVLFL LC++F EVAFPHCA CFGRCY GGA+LITD+K LFDGI RL+A S SR+LPKPV+N+E KN +ENG  P  ENGV+ +  +T S    EKE+ + +   EEK    + TR
Sbjct:   11 ANDDVSTEMSNLLPLASAAQQPYVSELLSFTLDRLHKEPELLRVDAERIRRQMQEVAVGNYRAFIAAADALLEIREEVSSIDKHLESLIAEIPKLTAGCTEFVDSAEHILEKRKMNQTLLANHSTLLDLLEIPQLMDTCVRNGNYDEALDLEAFVAKLTTMHPKIPVIQALAAEVRQTTQSLLSQLLQKLRSNIQLPECLRIIGYLRRIGVFSEYEMRLQFLRCREAWLTGLLDDLDQRNPYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENYDGGLIFDWAMHQITLHLNTLKVMLPKISEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMNTAVENFQLVLDSHRWVPLPAVGFPANSLGEESQEDVTPPSNLMEHPPLAVFINGVSAAMNELRPCAPISLKNVLAQELIKGLQAVSDSLLRYNTTRMLRGNESVLFLKLCQAFIEVAFPHCAICFGRCYPGGAALITDAKNLFDGIGRLLATSPSRELPKPVHNAEAKNVSENGNLPMVENGVVHSIERTASASLEEKEQSNVALPDEEKTETSEDTR 581
[Close]
BLAST of DCAR_003139 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A834L5R4 ((Uncharacterized protein {ECO:0000313|EMBL:KAF7116612.1}))

HSP 1 Score: 914.064 bits (2361), Expect = 0.000e+0
Identity = 448/550 (81.45%), Postives = 493/550 (89.64%), Query Frame = 0
 
Query:   17 DGDDEVSGGFLPLASGPQQPYEPELLRVDAERIEKQMQEVAVSNYRAFISAADALLAVRQEVSSIDKHLTSMIAEIPKLTSGCTEFIDSAEQILEKRKLNQTLLSNHSTLLDLLEIPQLMDTCVRNGNYDEALDLETFVGKLSTMHPKLPVIQALAAEVKHTTQSLLTQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENHDGGLLFSWATHQITSHLKMLKVMLPKIAEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMGTAVENFQLVLDSHRWVPLPAVGFSANSFGDENQEDVTPPPNLMDHPPLAVFVNGVSAAMNELRPCAPIRLKYIIAQELIKGLRAVSDSLLRYNTTRMLRENESVLFLSLCRSFTEVAFPHCATCFGRCYVGGASLITDSKGLFDGINRLVAASISRDLPKPVNNSENKNTTENGEAPPAENGVIDNGGQTESLGAVEKEEHDTSPQTEEKPVN 566
            DG+  VSG  LPLAS  QQPYEPELLRVD ERI++QMQEVAV+NYRAFISAADAL+A+R+EVSSIDKHL SMIAEIPKLTSGC EF+DSAE ILEKRKLNQTLL+NHSTLLDLLEIPQLMDTCVRNGNYDEALDLE FV KLS MHPKLPVIQALAAEVK TTQSLL+QLLQKLRSNIQLPECLRIIGYLRRIGV++EYEMRLQFLRCREAWLT ILDDLDQRNAYEYLKGMVNC RMHLFDVVNQYRAIFADDTSGSEEN++GGLLFSWA HQIT+HLK LKVMLP+I EGGSLSNILDQCMYCAMGLGWVGLDFRGLLP LFEEAVLNLFS+NM TAV+NFQLVLDSHRWVPLPA+GF ANS G+++ EDVTPP +LM+HPPLAVFVNGVSAAMNELRPCAPI LK++++QEL KGL++VSDSLLRYNTTRMLRENES+LFLSLCR+F EVA+PHCATCFGRCY GGA+LI+D+K LFDGI RL+AA   + LPKP+ N E K+ +EN      ENGV+ N GQT     V+ EE + + QTEEKP N
Sbjct:    9 DGNGAVSG-LLPLASVSQQPYEPELLRVDGERIQRQMQEVAVANYRAFISAADALVAIREEVSSIDKHLESMIAEIPKLTSGCNEFLDSAEHILEKRKLNQTLLANHSTLLDLLEIPQLMDTCVRNGNYDEALDLEAFVCKLSAMHPKLPVIQALAAEVKQTTQSLLSQLLQKLRSNIQLPECLRIIGYLRRIGVFNEYEMRLQFLRCREAWLTAILDDLDQRNAYEYLKGMVNCQRMHLFDVVNQYRAIFADDTSGSEENYEGGLLFSWAMHQITTHLKTLKVMLPRITEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPSLFEEAVLNLFSRNMNTAVQNFQLVLDSHRWVPLPAIGFPANSLGEDSLEDVTPPSSLMEHPPLAVFVNGVSAAMNELRPCAPISLKHMLSQELAKGLQSVSDSLLRYNTTRMLRENESILFLSLCRAFIEVAYPHCATCFGRCYPGGAALISDAKNLFDGIGRLLAA---KALPKPIQNEERKSISENCSPNVVENGVMPNAGQTTGSSNVDDEEENITLQTEEKPAN 554
[Close]
BLAST of DCAR_003139 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A251SZ55 (Conserved oligomeric Golgi complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415} (COG complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415}) (Component of oligomeric Golgi complex 8 {ECO:0000256|PIRNR:PIRNR015415}))

HSP 1 Score: 911.368 bits (2354), Expect = 0.000e+0
Identity = 450/571 (78.81%), Postives = 499/571 (87.39%), Query Frame = 0
 
Query:   14 TVNDGDDEVSGGFLPLASGPQQPY--------------EPELLRVDAERIEKQMQEVAVSNYRAFISAADALLAVRQEVSSIDKHLTSMIAEIPKLTSGCTEFIDSAEQILEKRKLNQTLLSNHSTLLDLLEIPQLMDTCVRNGNYDEALDLETFVGKLSTMHPKLPVIQALAAEVKHTTQSLLTQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENHDGGLLFSWATHQITSHLKMLKVMLPKIAEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMGTAVENFQLVLDSHRWVPLPAVGFSANSFGDENQEDVTPPPNLMDHPPLAVFVNGVSAAMNELRPCAPIRLKYIIAQELIKGLRAVSDSLLRYNTTRMLRENESVLFLSLCRSFTEVAFPHCATCFGRCYVGGASLITDSKGLFDGINRLVAASISRDLPKPVNNSENKNTTENGEAPPAENG-VIDNGGQTESLGAVEKEE-HDTSP--QTEEKPVN 566
            T ++         LPLAS  QQPY              EPELLRVDAERI +QMQEVAV+NYR+FISAADAL+++R EVSSIDKHL S+IAE+PKLTSGC+EFI+SAEQILEKRK+NQTLL+NHSTLLDLLEIPQLMDTCVRNGNYDEALDLE FV KLSTMHPKLPVIQALAAEV+  T+SLL+QLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCRE+WL+GILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEEN+DGGLLFSWA HQI+SHLK LKVMLPKI EGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNM TAVENFQLVLDSHRWVPLPAVGFS+NSFG+E QEDVTPPPNLM+HPPLAVFVNGVSAAMNELRPCAPI LK+I+AQEL+KGLR VSDSLLRYNTTR+LRENESVLFLS+CR+F EVA+PHCATCFGRCY GG+SLITD   +F+G+NRL+  S SR LPK V ++E K   ENG++P  ENG V+ +  + E+   VE++  ++TS   Q EE+ VN
Sbjct:    7 TADESSSATMAELLPLASVSQQPYVSELLSFTLDRLHKEPELLRVDAERIRRQMQEVAVNNYRSFISAADALVSIRHEVSSIDKHLESLIAEVPKLTSGCSEFIESAEQILEKRKMNQTLLANHSTLLDLLEIPQLMDTCVRNGNYDEALDLEAFVSKLSTMHPKLPVIQALAAEVQEITKSLLSQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCRESWLSGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENYDGGLLFSWAMHQISSHLKTLKVMLPKITEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMNTAVENFQLVLDSHRWVPLPAVGFSSNSFGEEGQEDVTPPPNLMEHPPLAVFVNGVSAAMNELRPCAPISLKHILAQELVKGLRTVSDSLLRYNTTRVLRENESVLFLSMCRAFVEVAYPHCATCFGRCYTGGSSLITDGNHVFEGLNRLLTTSSSRQLPKRVQSAETK---ENGDSPAVENGVVVADVNEAENKNVVEEDNVNNTSSEIQNEEQTVN 574
[Close]
BLAST of DCAR_003139 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: W9QY00 (Conserved oligomeric Golgi complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415} (COG complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415}) (Component of oligomeric Golgi complex 8 {ECO:0000256|PIRNR:PIRNR015415}))

HSP 1 Score: 910.983 bits (2353), Expect = 0.000e+0
Identity = 451/563 (80.11%), Postives = 494/563 (87.74%), Query Frame = 0
 
Query:   17 DGDDEVS--GGFLPLASGPQQPY--------------EPELLRVDAERIEKQMQEVAVSNYRAFISAADALLAVRQEVSSIDKHLTSMIAEIPKLTSGCTEFIDSAEQILEKRKLNQTLLSNHSTLLDLLEIPQLMDTCVRNGNYDEALDLETFVGKLSTMHPKLPVIQALAAEVKHTTQSLLTQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENHDGGLLFSWATHQITSHLKMLKVMLPKIAEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMGTAVENFQLVLDSHRWVPLPAVGFSANSFGDENQEDVTPPPNLMDHPPLAVFVNGVSAAMNELRPCAPIRLKYIIAQELIKGLRAVSDSLLRYNTTRMLRENESVLFLSLCRSFTEVAFPHCATCFGRCYVGGASLITDSKGLFDGINRLVAASISRDLPKPVNNSENKNTTENGEAPPAENGVIDNGGQTESLGAVEKEEHDTSPQTEEK 563
            D  +E S  GG LPLAS  QQPY              EPELLRVDAERI +QMQEVAV+NYRAFISAADALLA+R+EV+SIDKHL SMIA+IPKLTSGCTEF++SAEQILEKRK+NQTLL+NHSTLLDLLEIPQLMDTCVRNGNYDEALDLE FVGKLSTMHPKLPVIQALAAEV+ TTQSLL+QLLQKLRSNIQLPECLRIIGYLRRIGV+SEYEMRLQFLRCREAWL+GIL+DLDQRNAYEYLKGM+NCHRMHLFDVVNQYRAIFADDTSGSEEN+DGGLLFSW  HQITSHLK LKVMLPKI EGGSLSNILDQCMYC MGLGWVGLDFRGLLPPLFEEAVLNLFSKNM TAVENFQLVLDSHRWVPLPAVGF ANS  +E QE+VTPP  LM+HPPLAVFVNGVSAAMNELRPCAPI LK+++AQELIKGL+ VSD LLRYNTTRMLRENES LFLSLCR+F EVA+PHCATCFGRCY GGA+LI D+K L+DG++RL+  S SR+L KPV+N E K  TENGE P AENG   +  QT    A E+E+ +++  ++EK
Sbjct:    5 DAAEEASTVGGLLPLASASQQPYVSELLSFTLDRLHKEPELLRVDAERIRRQMQEVAVNNYRAFISAADALLAIREEVTSIDKHLESMIADIPKLTSGCTEFVESAEQILEKRKMNQTLLANHSTLLDLLEIPQLMDTCVRNGNYDEALDLEAFVGKLSTMHPKLPVIQALAAEVRQTTQSLLSQLLQKLRSNIQLPECLRIIGYLRRIGVFSEYEMRLQFLRCREAWLSGILEDLDQRNAYEYLKGMINCHRMHLFDVVNQYRAIFADDTSGSEENYDGGLLFSWPMHQITSHLKTLKVMLPKINEGGSLSNILDQCMYCTMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMSTAVENFQLVLDSHRWVPLPAVGFPANSVVEETQEEVTPPSYLMEHPPLAVFVNGVSAAMNELRPCAPISLKHVLAQELIKGLQTVSDYLLRYNTTRMLRENESGLFLSLCRAFIEVAYPHCATCFGRCYPGGAALIMDAKNLYDGVSRLLTVSSSRELRKPVSNEEGKGITENGEVPSAENG-FTSVEQTGDANADEREQKNSASPSDEK 566
[Close]
BLAST of DCAR_003139 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B6YWL3 (Conserved oligomeric Golgi complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415} (COG complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415}) (Component of oligomeric Golgi complex 8 {ECO:0000256|PIRNR:PIRNR015415}))

HSP 1 Score: 908.672 bits (2347), Expect = 0.000e+0
Identity = 449/556 (80.76%), Postives = 491/556 (88.31%), Query Frame = 0
 
Query:   24 GGFLPLASGPQQPY--------------EPELLRVDAERIEKQMQEVAVSNYRAFISAADALLAVRQEVSSIDKHLTSMIAEIPKLTSGCTEFIDSAEQILEKRKLNQTLLSNHSTLLDLLEIPQLMDTCVRNGNYDEALDLETFVGKLSTMHPKLPVIQALAAEVKHTTQSLLTQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENHDGGLLFSWATHQITSHLKMLKVMLPKIAEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMGTAVENFQLVLDSHRWVPLPAVGFSANSFGDENQEDVTPPPNLMDHPPLAVFVNGVSAAMNELRPCAPIRLKYIIAQELIKGLRAVSDSLLRYNTTRMLRENESVLFLSLCRSFTEVAFPHCATCFGRCYVGGASLITDSKGLFDGINR--LVAASISRDLPKPVNNSENKNTTENGEAPPAENGVIDNGGQTESLGAVEKEEHDTSPQTEEK 563
             G LPLAS  QQPY              EPELL VDAERI +QMQEVAV NYRAFISAADALL +R+EVSSIDKHL S+I EIPKLT+GCTEFIDSAEQILEKRK+NQ LL+NHSTLLDLLEIPQLMDTCVRNGNYDEALDLE FV KLSTMHPKLPVIQAL+AEV+ TTQSLL+QLLQKLRSNIQLPECLRIIGYLRRIGV+SEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEEN+DGGLLFSWA HQITSHLK  KV+LPKI EGGSLSNILDQCMYCAMGLGWVGLDFRGLLP LFEEAVLNLFSKNM TAVENFQLVLDSHRWVPLPAVGF ANS G+E QEDVTPP +LM+HPPLAVFVNGVSAAMNELRPCAP+ LK+++AQEL+KGL+AVSDSLLRYNTTRMLRENESVLFLSLCR+F EVA+PHCATCFGRCY GGA+LI D+K LFDGI+R  L  +S SR++PK V N+E ++ +ENG+ P  ENGV+ +  QTES    E E+++++ Q EEK
Sbjct:   16 AGLLPLASFSQQPYVSELLSFTLDRLHKEPELLWVDAERIRRQMQEVAVGNYRAFISAADALLEIREEVSSIDKHLESLIVEIPKLTAGCTEFIDSAEQILEKRKMNQRLLANHSTLLDLLEIPQLMDTCVRNGNYDEALDLEAFVCKLSTMHPKLPVIQALSAEVRQTTQSLLSQLLQKLRSNIQLPECLRIIGYLRRIGVFSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENYDGGLLFSWAMHQITSHLKTFKVILPKITEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPSLFEEAVLNLFSKNMCTAVENFQLVLDSHRWVPLPAVGFPANSVGEEIQEDVTPPSSLMEHPPLAVFVNGVSAAMNELRPCAPLSLKHVLAQELVKGLQAVSDSLLRYNTTRMLRENESVLFLSLCRAFIEVAYPHCATCFGRCYPGGAALIMDAKNLFDGISRRLLATSSSSREVPKTVQNTEARSPSENGDLPAVENGVVPSVEQTESSSVDETEQNNSTLQIEEK 571
[Close]
BLAST of DCAR_003139 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A251TMT1 (Conserved oligomeric Golgi complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415} (COG complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415}) (Component of oligomeric Golgi complex 8 {ECO:0000256|PIRNR:PIRNR015415}))

HSP 1 Score: 906.746 bits (2342), Expect = 0.000e+0
Identity = 446/571 (78.11%), Postives = 499/571 (87.39%), Query Frame = 0
 
Query:   12 TVTVNDGDDEVSGG---FLPLASGPQQPY--------------EPELLRVDAERIEKQMQEVAVSNYRAFISAADALLAVRQEVSSIDKHLTSMIAEIPKLTSGCTEFIDSAEQILEKRKLNQTLLSNHSTLLDLLEIPQLMDTCVRNGNYDEALDLETFVGKLSTMHPKLPVIQALAAEVKHTTQSLLTQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENHDGGLLFSWATHQITSHLKMLKVMLPKIAEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMGTAVENFQLVLDSHRWVPLPAVGFSANSFGDENQEDVTPPPNLMDHPPLAVFVNGVSAAMNELRPCAPIRLKYIIAQELIKGLRAVSDSLLRYNTTRMLRENESVLFLSLCRSFTEVAFPHCATCFGRCYVGGASLITDSKGLFDGINRLVAASISRDLPKPVNNSENKNTTENGEAPPAEN-GVIDNGGQTESLGAVEKEE-HDTSPQTEEK 563
            T+T +   D+ S      LPLAS  QQPY              EPELLRVDA+RI +QMQEVAV+NYRAFISAADAL+++R EVSSIDKHL S+IAE+PKLTSGC+EFIDSAE ILEKRK+NQTLL+NHSTLLDLLEIPQLMDTCVRNGNYDEALDLE FV KLSTMHPKL VIQALA+EV+ TTQSLL+QLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCRE+WL+GILDDL+QRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEEN+DGGLLFSWA HQI+SHLK LK+MLPKI EGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNM TAVENFQLVLDSHRWVPLPAVGFS+NSFG+E+QEDVTPPPNLM+HPPLAVF+NGVSAAMNELRPCAPI LK+I+AQEL+KGL+ VSDSLLRYNTTR+LRENESVLFLSLCR+F EVA+PHCATCFGRCY GG+ L+TD   LF+G+ RL+  S SR LPK V ++E K+ +ENG +   EN G +    +TES   VE+++ ++TS  T+EK
Sbjct:    3 TITPSPSTDDTSATMAELLPLASVSQQPYVSELLSFTLDRLHKEPELLRVDADRIRRQMQEVAVNNYRAFISAADALVSIRNEVSSIDKHLESLIAEVPKLTSGCSEFIDSAESILEKRKMNQTLLANHSTLLDLLEIPQLMDTCVRNGNYDEALDLEAFVSKLSTMHPKLQVIQALASEVRQTTQSLLSQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCRESWLSGILDDLEQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENYDGGLLFSWAMHQISSHLKTLKIMLPKITEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMSTAVENFQLVLDSHRWVPLPAVGFSSNSFGEESQEDVTPPPNLMEHPPLAVFINGVSAAMNELRPCAPISLKHILAQELVKGLQTVSDSLLRYNTTRVLRENESVLFLSLCRAFIEVAYPHCATCFGRCYPGGSLLVTDGSNLFEGLTRLLTTSSSRQLPKRVQSAETKSVSENGNSTAVENGGAVAEVKETESSKVVEEDDVNNTSSITQEK 573
[Close]
BLAST of DCAR_003139 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2U1NMW8 (Conserved oligomeric Golgi complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415} (COG complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415}) (Component of oligomeric Golgi complex 8 {ECO:0000256|PIRNR:PIRNR015415}))

HSP 1 Score: 906.36 bits (2341), Expect = 0.000e+0
Identity = 445/562 (79.18%), Postives = 488/562 (86.83%), Query Frame = 0
 
Query:   23 SGGFLPLASGPQQPY--------------EPELLRVDAERIEKQMQEVAVSNYRAFISAADALLAVRQEVSSIDKHLTSMIAEIPKLTSGCTEFIDSAEQILEKRKLNQTLLSNHSTLLDLLEIPQLMDTCVRNGNYDEALDLETFVGKLSTMHPKLPVIQALAAEVKHTTQSLLTQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENHDGGLLFSWATHQITSHLKMLKVMLPKIAEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMGTAVENFQLVLDSHRWVPLPAVGFSANSFGDENQEDVTPPPNLMDHPPLAVFVNGVSAAMNELRPCAPIRLKYIIAQELIKGLRAVSDSLLRYNTTRMLRENESVLFLSLCRSFTEVAFPHCATCFGRCYVGGASLITDSKGLFDGINRLVAASISRDLPKPVNN---SENKNTTENGEAPPAENGVIDNGGQTESLGAVEKEEHDTSPQTEEKPVND 567
            S   LPLAS  QQPY              EPELLRVDAERI +QMQEVAV+NYRAFISAADAL+ +R EVS IDKHL +MIAE+PKLTSGC+EFIDSAE ILEKRK+NQTLL+NHSTLLDLLEIPQLMDTCVRNGNYDEALDLE +V KLSTMHPKLPVIQALAAEV+ TTQSLL+QLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCRE+WL+GILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEEN+DGGLLFSWA HQI SHLK LK+MLPKI EGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNM TAVENFQ+VLDSHRWVPLPAVGFS +SFG+ENQEDVTPPPNLM+HPPLAVFVNGVSAAMNELRPCAPI LK+I+AQEL+KGLR VSDSLLRYNTTR+LRENESVLFLSLCR+F EVA+PHCAT FGRCY GG+SLITD + LF+GI RL+    SR LPK V N   SE KN +ENG +    NG  ++  +T++   VE++   T  Q +E+ + +
Sbjct:   65 SPDLLPLASSSQQPYVSELLSFTLDRLHKEPELLRVDAERIRRQMQEVAVNNYRAFISAADALVQIRNEVSDIDKHLETMIAEVPKLTSGCSEFIDSAENILEKRKMNQTLLANHSTLLDLLEIPQLMDTCVRNGNYDEALDLEAYVSKLSTMHPKLPVIQALAAEVRQTTQSLLSQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCRESWLSGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENYDGGLLFSWAMHQIASHLKTLKIMLPKITEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMSTAVENFQVVLDSHRWVPLPAVGFSTSSFGEENQEDVTPPPNLMEHPPLAVFVNGVSAAMNELRPCAPISLKHILAQELVKGLRTVSDSLLRYNTTRVLRENESVLFLSLCRAFVEVAYPHCATSFGRCYPGGSSLITDGENLFEGITRLLTTHSSRQLPKKVQNAETSETKNVSENGNSSTVANGAPEDAKETDNSSNVEEDNVKTKLQYQEEKIEE 626
[Close]
BLAST of DCAR_003139 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A834FU19 ((Uncharacterized protein {ECO:0000313|EMBL:KAF7112629.1}))

HSP 1 Score: 906.36 bits (2341), Expect = 0.000e+0
Identity = 448/564 (79.43%), Postives = 494/564 (87.59%), Query Frame = 0
 
Query:   17 DGDDEVSGGFLPLASGPQQPY--------------EPELLRVDAERIEKQMQEVAVSNYRAFISAADALLAVRQEVSSIDKHLTSMIAEIPKLTSGCTEFIDSAEQILEKRKLNQTLLSNHSTLLDLLEIPQLMDTCVRNGNYDEALDLETFVGKLSTMHPKLPVIQALAAEVKHTTQSLLTQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENHDGGLLFSWATHQITSHLKMLKVMLPKIAEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMGTAVENFQLVLDSHRWVPLPAVGFSANSFGDENQEDVTPPPNLMDHPPLAVFVNGVSAAMNELRPCAPIRLKYIIAQELIKGLRAVSDSLLRYNTTRMLRENESVLFLSLCRSFTEVAFPHCATCFGRCYVGGASLITDSKGLFDGINRLVAASISRDLPKPVNNSENKNTTENGEAPPAENGVIDNGGQTESLGAVEKEEHDTSPQTEEKPVN 566
            DG+  VSG  LPLAS  QQPY              EPELLRVD ERI++QMQEVAV+NYRAFISAADAL+A+R+EVSSIDKHL SMIAEIPKLTSGC EF+DSAE ILEKRKLNQTLL+NHSTLLDLLEIPQLMDTCVRNGNYDEALDLE FV KLS MHPKLPVIQALAAEVK TTQSLL+QLLQKLRSNIQLPECLRIIGYLRRIGV++EYEMRLQFLRCREAWLT ILDDLDQRNAYEYLKGMVNC RMHLFDVVNQYRAIFADDTSGSEEN++GGLLFSWA HQIT+HLK LKVMLP+I EGGSLSNILDQCMYCAMGLGWVGLDFRGLLP LFEEAVLNLFS+NM TAV+NFQLVLDSHRWVPLPA+GF ANS G+++ EDVTPP +LM+HPPLAVFVNGVSAAMNELRPCAPI LK++++QEL KGL++VSDSLLRYNTTRMLRENES+LFLSLCR+F EVA+PHCATCFGRCY GGA+LI+D+K LFDGI RL+AA   + LPKP+ N E K+ +ENG     ENGV+ N GQT     V+ +E + + QTEEKP N
Sbjct:    9 DGNGAVSG-LLPLASVSQQPYVSELLSFTLDRLHKEPELLRVDGERIQRQMQEVAVANYRAFISAADALVAIREEVSSIDKHLESMIAEIPKLTSGCNEFLDSAEHILEKRKLNQTLLANHSTLLDLLEIPQLMDTCVRNGNYDEALDLEAFVCKLSAMHPKLPVIQALAAEVKQTTQSLLSQLLQKLRSNIQLPECLRIIGYLRRIGVFNEYEMRLQFLRCREAWLTAILDDLDQRNAYEYLKGMVNCQRMHLFDVVNQYRAIFADDTSGSEENYEGGLLFSWAMHQITTHLKTLKVMLPRITEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPSLFEEAVLNLFSRNMNTAVQNFQLVLDSHRWVPLPAIGFPANSLGEDSLEDVTPPSSLMEHPPLAVFVNGVSAAMNELRPCAPISLKHMLSQELAKGLQSVSDSLLRYNTTRMLRENESILFLSLCRAFIEVAYPHCATCFGRCYPGGAALISDAKNLFDGIGRLLAA---KALPKPIQNEERKSISENGSPNVVENGVMPNAGQTAGSSNVDDKEENITLQTEEKPAN 568
[Close]
BLAST of DCAR_003139 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A022S3I8 (Conserved oligomeric Golgi complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415} (COG complex subunit 8 {ECO:0000256|PIRNR:PIRNR015415}) (Component of oligomeric Golgi complex 8 {ECO:0000256|PIRNR:PIRNR015415}))

HSP 1 Score: 904.049 bits (2335), Expect = 0.000e+0
Identity = 435/537 (81.01%), Postives = 479/537 (89.20%), Query Frame = 0
 
Query:   38 EPELLRVDAERIEKQMQEVAVSNYRAFISAADALLAVRQEVSSIDKHLTSMIAEIPKLTSGCTEFIDSAEQILEKRKLNQTLLSNHSTLLDLLEIPQLMDTCVRNGNYDEALDLETFVGKLSTMHPKLPVIQALAAEVKHTTQSLLTQLLQKLRSNIQLPECLRIIGYLRRIGVYSEYEMRLQFLRCREAWLTGILDDLDQRNAYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGSEENHDGGLLFSWATHQITSHLKMLKVMLPKIAEGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMGTAVENFQLVLDSHRWVPLPAVGFSANSFGDENQEDVTPPPNLMDHPPLAVFVNGVSAAMNELRPCAPIRLKYIIAQELIKGLRAVSDSLLRYNTTRMLRENESVLFLSLCRSFTEVAFPHCATCFGRCYVGGASLITDSKGLFDGINRLVAASISRDLPKPVNNSENKNTTEN-GEAPPAENGVIDNGGQTESLGAVEKEEHD-TSPQTEE-KPVNDDATR 571
            EPELL+VDAERI +QMQEVAV NYRAFI+AADALL +R+EVSSIDKHL S+IAEIPKLTSGCTEF+DSAE ILEKRK+NQTLL+NHSTLLDLLEIPQLM+TCVRNGNYDEALDLE FV KL+TMHPK+PVIQALAAEV+ TTQSLL QLLQKLRSNIQLPECLR+IGYLRRIGV+SEYEMRLQFLRCREAWLTGILDDLDQRN YEYLKGMVNCHRMHLFDVVNQYRAIFADDTSG+EEN+DGGLLF WA HQIT HLK LK+MLP I++GGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNM TAVENFQLVLDSHRWVPLP+VGF ANSFG+E+Q+DVTPP NLM+HPPLAVF+NGVSAAMNELRPCAPI LK +IAQEL+KGL+AVSDSLLRYNTTRML+ NESVLFL LC++F EV FPH ATCFGRCY GGA LITD+  LFDGI RL+A S +R+LPKP  N   KN  EN G  P +ENGV  N  +T S    EKE+++ TSPQ EE K  ++D T+
Sbjct:   10 EPELLKVDAERIRRQMQEVAVGNYRAFIAAADALLEIREEVSSIDKHLESLIAEIPKLTSGCTEFVDSAEDILEKRKMNQTLLANHSTLLDLLEIPQLMETCVRNGNYDEALDLEAFVAKLTTMHPKIPVIQALAAEVRQTTQSLLFQLLQKLRSNIQLPECLRLIGYLRRIGVFSEYEMRLQFLRCREAWLTGILDDLDQRNPYEYLKGMVNCHRMHLFDVVNQYRAIFADDTSGNEENYDGGLLFDWAMHQITLHLKTLKLMLPSISDGGSLSNILDQCMYCAMGLGWVGLDFRGLLPPLFEEAVLNLFSKNMTTAVENFQLVLDSHRWVPLPSVGFPANSFGEESQDDVTPPSNLMEHPPLAVFINGVSAAMNELRPCAPISLKNLIAQELVKGLQAVSDSLLRYNTTRMLKTNESVLFLKLCQAFIEVVFPHSATCFGRCYPGGAPLITDATNLFDGIGRLLATSPARELPKPALNVATKNVLENGGNQPVSENGVPHNIERTASANLEEKEQNNITSPQKEEQKATSEDDTK 546
Match NameStatsDescription
A0A6I9TD67E-Value: 0.000e+0, PID: 79.02Conserved oligomeric Golgi complex subunit 8 {ECO:... [more]
A0A2G9HVK9E-Value: 0.000e+0, PID: 79.16Conserved oligomeric Golgi complex subunit 8 {ECO:... [more]
A0A834L5R4E-Value: 0.000e+0, PID: 81.45(Uncharacterized protein {ECO:0000313|EMBL:KAF7116... [more]
A0A251SZ55E-Value: 0.000e+0, PID: 78.81Conserved oligomeric Golgi complex subunit 8 {ECO:... [more]
W9QY00E-Value: 0.000e+0, PID: 80.11Conserved oligomeric Golgi complex subunit 8 {ECO:... [more]
A0A5B6YWL3E-Value: 0.000e+0, PID: 80.76Conserved oligomeric Golgi complex subunit 8 {ECO:... [more]
A0A251TMT1E-Value: 0.000e+0, PID: 78.11Conserved oligomeric Golgi complex subunit 8 {ECO:... [more]
A0A2U1NMW8E-Value: 0.000e+0, PID: 79.18Conserved oligomeric Golgi complex subunit 8 {ECO:... [more]
A0A834FU19E-Value: 0.000e+0, PID: 79.43(Uncharacterized protein {ECO:0000313|EMBL:KAF7112... [more]
A0A022S3I8E-Value: 0.000e+0, PID: 81.01Conserved oligomeric Golgi complex subunit 8 {ECO:... [more]

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Analysis: 
NameDescription
Carrot Genome Assembly DCARv2

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
DCAR peptide blastp to SwissProt and TrEMBL without DCAR

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.
DCAR V1.0 Gene Prediction

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.