Resource Type:
Polypeptide
Name:
DCAR_004695
Identifier:
DCAR_004695.mRNA-protein
Sequence:
MAAAKSSVDIEVEDREQADETSKSFEELGVDARLIRALSKKGVNKPTPIQ
CSAVPLILEGKDVVTRAHTGSGKTFAYLLPVLQKLFSEVSEQKKAAPAVF
IVVPTRELCQQVYNEAMSLIELCRVQLKVVQFTTDAQINDLKVALAGRPD
ILVSTPGGILKCLKLGVLQGKQIQDSLSVLVLDEADLLLSFGHGNDLKAL
TVHIPRQCQCLLMSATISEEVETLARPLLHNPYILTLCDNGNEKDEIVSK
NIQQYYIKCSSRDKLVHILALLKLELVQKKVLIFTNTIDMSFRLKLFLEQ
FGIKSAVFNSELPLNSRKHIIEGFSAGLFDYMIATDDGDSKEKEKDGDGD
NAVINFDMPQSAVRYVHRIGRTGRAHDLGESVSLVAPEEENVFEEIEALL
GENGPDSNPIAKFRFPTENAVESLRYRAEDVARSVTKIAVRESRAQDLRN
EILNSEKLKAHFQNNPKDLDLLKHDKPLSKKAPAPHLRDVPAYLLDPTTQ
EASKIVKLTSAVMRRNNNSARRRGSQGKSRNRDPLKSFSAQGQKNSSKGG
MKRKGTDGDSGKKSKTKHT*
Sequence Length:
570
Sequence Checksum:
0a7f7143a9eb735e848e8dbb807d43a3
View location in JBrowse:
Organism:
Relationship:
| Relationships |
|---|
| The polypeptide, DCAR_004695, derives from mRNA, DCAR_004695. |
Blast Results:
The following BLAST results are available for this feature:
BLAST of DCAR_004695 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
Analysis Date: 2021-12-09
Analysis Name: DCAR peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 20
BLAST of DCAR_004695 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7BD55 ((Uncharacterized protein {ECO:0000313|EMBL:MPA66802.1}))
HSP 1 Score: 784.252 bits (2024), Expect = 0.000e+0
Identity = 404/601 (67.22%), Postives = 463/601 (77.04%), Query Frame = 0
Match: A0A5B7BD55 ((Uncharacterized protein {ECO:0000313|EMBL:MPA66802.1}))
HSP 1 Score: 784.252 bits (2024), Expect = 0.000e+0
Identity = 404/601 (67.22%), Postives = 463/601 (77.04%), Query Frame = 0
Query: 1 MAAAKSSVDIEVEDREQADETSKSFEELGVDARLIRALSKKGVNKPTPIQCSAVPLILEGKDVVTRAHTGSGKTFAYLLPVLQKLFSEVSEQKKAAPAVFIVVPTRELCQQVYNEAMSLIELCRVQLKVVQFTTDAQINDLKVALAGRPDILVSTPGGILKCLKLGVLQGKQIQDSLSVLVLDEADLLLSFGHGNDLKALTVHIPRQCQCLLMSATISEEVETLARPLLHNPYILTLCDNGNEKDEIVSKNIQQYYIKCSSRDKLVHILALLKLELVQKKVLIFTNTIDMSFRLKLFLEQFGIKSAVFNSELPLNSRKHIIEGFSAGLFDYMIATDDGDSKEKEK-DGDGD-----------------------------NAVINFDMPQSAVRYVHRIGRTGRAHDLGESVSLVAPEEENVFEEIEALLGEN-GPDSNPIAKFRFPTENAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQNNPKDLDLLKHDKPLSKKAPAPHLRDVPAYLLDPTTQEASKIVKLTSAVMRRNNNSARRRGSQGKSR-NRDPLKSFSAQGQKNSSKGGMKRKGTDGDSGKKSKTKHT 569
MA ++ E +D+E+ +E ++FEELG+D RLI AL+KK V PTPIQ A+PLILEGKDVV RA TGSGKTFAYLLP++QKLFS+ S +K AP FI+VPTRELCQQVY+EA+SLIELCRVQLKVVQ T+ +DL+ LAG P+ILVSTP I CL G+LQ +QDSLS+LVLDEADLLLS+G+ NDLKALT H+PR+CQCLLMSAT S +VE L + +LHNPYILTL + G+ KDEI+ KN+QQ++I CS+RDKLVHILALLKL LVQKKVLIFTNTIDM FRLKLF EQFGIKSAV N+ELP NSR HI+E F+AGLFDY+IATDD SKEKE+ DG+ + VINFDMPQSA YVHRIGRTGRA+ G SVSLV+PEE FEEI ++ GEN DSN IA F T+NAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQ+NPKDLDLLKHDK LSKKAPA HLRDVP YLLDPTTQEASKIVKL A M N N RR+G +GK R N+DPLKSFSA+ K + KGGMKRKG DG+ KSK K +
Sbjct: 1 MANETDNLPQETKDQEEQEE-DQTFEELGLDPRLIHALTKKSVENPTPIQRVAIPLILEGKDVVARAKTGSGKTFAYLLPLVQKLFSDSSSKKNLAPTAFILVPTRELCQQVYSEALSLIELCRVQLKVVQLTSTMSASDLRTTLAGPPEILVSTPACIQTCLSKGILQSTSVQDSLSILVLDEADLLLSYGYENDLKALTAHVPRRCQCLLMSATSSADVEKLKKLILHNPYILTLPEVGDVKDEIIPKNVQQFWISCSTRDKLVHILALLKLGLVQKKVLIFTNTIDMGFRLKLFFEQFGIKSAVLNAELPQNSRLHILEEFNAGLFDYLIATDDSQSKEKEQADGESHVERRKARKHAKKKLDSEFGVVRGIDFKNVHTVINFDMPQSAAGYVHRIGRTGRAYKTGASVSLVSPEEMETFEEIRSIFGENENKDSNFIAPFPLLTKNAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQDNPKDLDLLKHDKVLSKKAPATHLRDVPEYLLDPTTQEASKIVKLARAAM-GNTNPTRRKGLKGKFRTNKDPLKSFSAEAPKKAFKGGMKRKGKDGNDSHKSKKKQS 599
BLAST of DCAR_004695 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5BUE2 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8546609.1}))
HSP 1 Score: 764.992 bits (1974), Expect = 0.000e+0
Identity = 410/611 (67.10%), Postives = 467/611 (76.43%), Query Frame = 0
Match: A0A5J5BUE2 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8546609.1}))
HSP 1 Score: 764.992 bits (1974), Expect = 0.000e+0
Identity = 410/611 (67.10%), Postives = 467/611 (76.43%), Query Frame = 0
Query: 1 MAAAKSSVDIEVEDREQADETSKSFEELGVDARLIRALSKKGVNKPTPIQCSAVPLIL---------EGKDVVTRAHTGSGKTFAYLLPVLQKLFSEVSEQKKAAPAVFIVVPTRELCQQVYNEAMSLIELCRVQLKVVQFTTDAQINDLKVALAGRPDILVSTPGGILKCLKLGVLQGKQIQDSLSVLVLDEADLLLSFGHGNDLKALTVHIPRQCQCLLMSATISEEVETLARPLLHNPYILTLCDNGNEKDEIVSKNIQQYYIKCSSRDKLVHILALLKLELVQKKVLIFTNTIDMSFRLKLFLEQFGIKSAVFNSELPLNSRKHIIEGFSAGLFDYMIATDDGDSKEKEKDGDGD-------------------------------NAVINFDMPQSAVRYVHRIGRTGRAHDLGESVSLVAPEEENVFEEIEALLGEN-GPDSNPIAKFRFPTENAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQNNPKDLDLLKHDKPLSKKAPAPHLRDVPAYLLDPTTQEASKIVKLTSAVMRRNNNSARRRGSQGKSR-NRDPLKSFSAQGQKNSSKGGMKRKGTDGDSGKKSKTKHT 569
MA A S+ E +DRE+ +E ++FEELG+D RLIRAL+KK + PTPIQ A+PLIL EGKDVV RA TGSGKTFAYLLP+LQKLFS S +K+ AP FI VPTRELCQQVY+EA+SLIELCRVQ+KVVQ T+ +DL+ LAG P+ILVSTP I CL G+LQ +QDSLS+LVLDEADLLLS+G+ +DLKALT H+PR CQCLLMSAT S +VE L +LHNPYILTL + G+ KDEI+ KN+QQ++I C +RDKLVHILALLKLELVQK+VLIFTNTIDM FRLKLF EQFGIKSAV N+ELP NSR HI+E F+AGLFDY+IATDD SKEKE+ GDGD + VINFDMPQSA YVHRIGRTGRA+ G SVSLV+P+E +FEEI ++LGEN DSN IA F T+NAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQ+NPKDLDLLKHDK LSKKAPAPHLRDVP YLLDPTTQEASKIVKL A M N NSARR+G +GK R NRDPLK+FSA+ KN+ KGGMKRKG G KSK K +
Sbjct: 1 MANATDSLLYETKDREEQEE-DQTFEELGLDPRLIRALTKKNIENPTPIQRVAIPLILVCSHFSLFSEGKDVVARAKTGSGKTFAYLLPLLQKLFSNSSSKKRLAPNAFIFVPTRELCQQVYSEALSLIELCRVQMKVVQLTSTMSASDLRTTLAGPPEILVSTPACIQTCLSKGILQPTSVQDSLSILVLDEADLLLSYGYEDDLKALTAHVPRGCQCLLMSATSSADVEKLKNLILHNPYILTLPEVGDVKDEIIPKNVQQFWISCGARDKLVHILALLKLELVQKRVLIFTNTIDMGFRLKLFFEQFGIKSAVLNAELPQNSRLHILEEFNAGLFDYLIATDDSHSKEKEQ-GDGDSHVERRKGRKHAKKKLDSEFGVVRGIDFKNVHTVINFDMPQSAAGYVHRIGRTGRAYKTGASVSLVSPDEMEIFEEIRSILGENENKDSNFIAPFPLLTKNAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQDNPKDLDLLKHDKALSKKAPAPHLRDVPEYLLDPTTQEASKIVKLARAAM-GNTNSARRKGLKGKLRKNRDPLKTFSAEAPKNAFKGGMKRKGKGGSDSYKSKKKQS 608
BLAST of DCAR_004695 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J7HZZ5 ((Uncharacterized protein {ECO:0000313|EMBL:KAF5958382.1}))
HSP 1 Score: 764.222 bits (1972), Expect = 0.000e+0
Identity = 393/601 (65.39%), Postives = 461/601 (76.71%), Query Frame = 0
Match: A0A7J7HZZ5 ((Uncharacterized protein {ECO:0000313|EMBL:KAF5958382.1}))
HSP 1 Score: 764.222 bits (1972), Expect = 0.000e+0
Identity = 393/601 (65.39%), Postives = 461/601 (76.71%), Query Frame = 0
Query: 1 MAAAKSSVDIEVEDREQADETS-KSFEELGVDARLIRALSKKGVNKPTPIQCSAVPLILEGKDVVTRAHTGSGKTFAYLLPVLQKLFSEVSEQKKAAPAVFIVVPTRELCQQVYNEAMSLIELCRVQLKVVQFTTDAQINDLKVALAGRPDILVSTPGGILKCLKLGVLQGKQIQDSLSVLVLDEADLLLSFGHGNDLKALTVHIPRQCQCLLMSATISEEVETLARPLLHNPYILTLCDNGNEKDEIVSKNIQQYYIKCSSRDKLVHILALLKLELVQKKVLIFTNTIDMSFRLKLFLEQFGIKSAVFNSELPLNSRKHIIEGFSAGLFDYMIATDDGDSKEKEKDGDGD-----------------------------NAVINFDMPQSAVRYVHRIGRTGRAHDLGESVSLVAPEEENVFEEIEALLGENGP-DSNPIAKFRFPTENAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQNNPKDLDLLKHDKPLSKKAPAPHLRDVPAYLLDPTTQEASKIVKLTSAVMRRNNNSARRRGSQGKSR-NRDPLKSFSAQGQKNSSKGGMKRKGTDGDSGKKSKTKHT 569
MA A + E ED E+ ++ ++FEELG+D RLIRAL+KKG++ PTPIQ A+PLIL GKDVV RA TGSGKTFAY+LP+LQKLFS+ + K AP FI+VPTREL QQVY+EA+SLIELCRVQLKVVQ + +DLK ALAG PDILVSTP I CL GVL +Q+SLS+LVLDEADLLLS+G+ +DLKALT HIPR+CQCLLMSAT S +VE L + +LHNPYILTL + G+ KD+I+ +N+QQ++I CS+RDKLV+ILALLKLELVQKKVLIFTNTIDM FRLKLF EQFGIKSAV NSELP NSR HI+E F+AGLFDY+IATDD SK+++ D + + VINFDMPQS Y+HRIGRTGRA++ G SVSLV+PEE +FEEI++ LGE+ DSN IA F T+NAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQ+NP+DLDLLKHDK LSKKAPAPHLRDVP YLLDPTTQEASK++KL A M N NS R+G +GK R N +PLKSFSA+ K KGGMKRKG D D G ++K K +
Sbjct: 1 MATATDKLSHENEDHEKEEQDDDQTFEELGLDPRLIRALTKKGIDNPTPIQRVAIPLILAGKDVVARAKTGSGKTFAYVLPLLQKLFSDSASNKNLAPTAFILVPTRELNQQVYSEALSLIELCRVQLKVVQLMSTMSASDLKTALAGPPDILVSTPACIKTCLSKGVLNPTSVQNSLSILVLDEADLLLSYGYEDDLKALTAHIPRRCQCLLMSATSSADVEKLKKLILHNPYILTLPEVGDVKDDIIPQNVQQFWISCSARDKLVYILALLKLELVQKKVLIFTNTIDMGFRLKLFFEQFGIKSAVLNSELPQNSRLHILEEFNAGLFDYLIATDDSQSKKEQADVESHVEQKKSRKHAKRKLDSEFGVVRGIDFKNVHTVINFDMPQSGAGYIHRIGRTGRAYNTGASVSLVSPEEMEIFEEIKSALGEDETRDSNFIAPFPLLTKNAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQDNPRDLDLLKHDKVLSKKAPAPHLRDVPEYLLDPTTQEASKVIKLARAAM-GNTNSGHRKGFKGKFRKNSNPLKSFSAEAPKRGFKGGMKRKGKDKDDGHRNKKKQS 600
BLAST of DCAR_004695 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A068U290 ((Uncharacterized protein {ECO:0000313|EMBL:CDP02636.1}))
HSP 1 Score: 762.681 bits (1968), Expect = 0.000e+0
Identity = 386/579 (66.67%), Postives = 452/579 (78.07%), Query Frame = 0
Match: A0A068U290 ((Uncharacterized protein {ECO:0000313|EMBL:CDP02636.1}))
HSP 1 Score: 762.681 bits (1968), Expect = 0.000e+0
Identity = 386/579 (66.67%), Postives = 452/579 (78.07%), Query Frame = 0
Query: 23 KSFEELGVDARLIRALSKKGVNKPTPIQCSAVPLILEGKDVVTRAHTGSGKTFAYLLPVLQKLFSEVSEQKKAAPAVFIVVPTRELCQQVYNEAMSLIELCRVQLKVVQFTTDAQINDLKVALAGRPDILVSTPGGILKCLKLGVLQGKQIQDSLSVLVLDEADLLLSFGHGNDLKALTVHIPRQCQCLLMSATISEEVETLARPLLHNPYILTLCDNGNEKDEIVSKNIQQYYIKCSSRDKLVHILALLKLELVQKKVLIFTNTIDMSFRLKLFLEQFGIKSAVFNSELPLNSRKHIIEGFSAGLFDYMIATDDGDSKEKEKDGDGDNA------------------------------VINFDMPQSAVRYVHRIGRTGRAHDLGESVSLVAPEEENVFEEIEALLGE-NGPDSNPIAKFRFPTENAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQNNPKDLDLLKHDKPLSKKAPAPHLRDVPAYLLDPTTQEASKIVKLTSAVMRRNNNSARRRGSQGKSR-NRDPLKSFSAQGQKNSSKGGMKRKGTDGDSGKKSKTKHT 569
+SFE+LG+D RLIRAL KK ++KPTPIQ A+PLILEGKDVV RA TGSGKTFAYLLP+LQKLFS+ + AP FI+ PTRELCQQVY E MSLIELCRVQLKVVQ T+ +DL+ ALAG PDILVSTP + CL GVLQ K +QDSLS++VLDEADLLLS+G+ +DLKALT H+PR+CQCLLMSAT S +VE L R +LHNPYILTL + G+ KD+I+ KN+QQ+YI C++RDKLVHILALLKLELVQKKVLIFTN ID S+RLKLF EQFGIKSAV N+ELP NSR HI+E F+AGLFDY+IATDD +EK+K G NA V+NF+MPQSA YVHRIGRTGRA++ G SVSLV+PEE ++FE+I++++GE + DSN IA F T+NAVE LRYRAEDVARSVTK+AVRESRAQDLRNEILNSEKLKAHFQ+NP+DLDLLKHDK LSKK PAPHLRDVP YLLDPTTQEA KIVKL A M NNN+ARR+G +GK R +RDPLK+FSA+ + SKGGM+R+G D+ K K K T
Sbjct: 50 RSFEDLGLDPRLIRALIKKNIDKPTPIQRVAIPLILEGKDVVARAKTGSGKTFAYLLPLLQKLFSDSPSKHNQAPTAFILAPTRELCQQVYAEVMSLIELCRVQLKVVQLTSSMSNSDLRTALAGPPDILVSTPACVHTCLSDGVLQQKAVQDSLSIIVLDEADLLLSYGYEDDLKALTAHVPRRCQCLLMSATSSADVEKLKRLILHNPYILTLPEVGDLKDDIIPKNVQQFYISCTARDKLVHILALLKLELVQKKVLIFTNAIDTSYRLKLFFEQFGIKSAVLNAELPQNSRLHILEEFNAGLFDYLIATDDSQPQEKKKFDSGSNAEQKKARKHAKQKLDAEFGVVRGIDFKNVHTVLNFEMPQSAAGYVHRIGRTGRAYNTGASVSLVSPEENDMFEDIKSIIGESDNMDSNFIAPFPLLTKNAVEGLRYRAEDVARSVTKVAVRESRAQDLRNEILNSEKLKAHFQDNPRDLDLLKHDKVLSKKDPAPHLRDVPEYLLDPTTQEARKIVKLVRAAM-GNNNTARRKGFKGKFRKSRDPLKTFSAEASRRPSKGGMRRRGPGCDASHKRKRKET 627
BLAST of DCAR_004695 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2R6PAS4 ((DEAD-box ATP-dependent RNA helicase {ECO:0000313|EMBL:PSR87907.1}))
HSP 1 Score: 758.059 bits (1956), Expect = 0.000e+0
Identity = 387/574 (67.42%), Postives = 449/574 (78.22%), Query Frame = 0
Match: A0A2R6PAS4 ((DEAD-box ATP-dependent RNA helicase {ECO:0000313|EMBL:PSR87907.1}))
HSP 1 Score: 758.059 bits (1956), Expect = 0.000e+0
Identity = 387/574 (67.42%), Postives = 449/574 (78.22%), Query Frame = 0
Query: 28 LGVDARLIRALSKKGVNKPTPIQCSAVPLILEGKDVVTRAHTGSGKTFAYLLPVLQKLFSEVSEQKKAAPAVFIVVPTRELCQQVYNEAMSLIELCRVQLKVVQFTTDAQINDLKVALAGRPDILVSTPGGILKCLKLGVLQGKQIQDSLSVLVLDEADLLLSFGHGNDLKALTVHIPRQCQCLLMSATISEEVETLARPLLHNPYILTLCDNGNEKDEIVSKNIQQYYIKCSSRDKLVHILALLKLELVQKKVLIFTNTIDMSFRLKLFLEQFGIKSAVFNSELPLNSRKHIIEGFSAGLFDYMIATDDGDSKEKEK-DGDGD-----------------------------NAVINFDMPQSAVRYVHRIGRTGRAHDLGESVSLVAPEEENVFEEIEALLGE-NGPDSNPIAKFRFPTENAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQNNPKDLDLLKHDKPLSKKAPAPHLRDVPAYLLDPTTQEASKIVKLTSAVMRRNNNSARRRGSQGKSR-NRDPLKSFSAQGQKNSSKGGMKRKGTDGDSGKKSKTKHT 569
LG+D RL+RAL+KKGV+KPTPIQ A+PLILEGKDVV RA TGSGKTFAY+LP+LQKLFS+ +KK P F+++PTRELCQQVY+E +SLIELCRVQLKV+Q T+ +DL ALAG PDILVSTP I C GVL+ +QDSLS+LVLDEADLLLS+G+ +DLKALT HIPR+CQCLLMSAT S +VE L + +LHNP+ILTL + G+ KDEI+ KN+QQ++I CS+RDKLV++LALLKLELVQKKVLIFTNTIDMSFRLKLF EQFGIKSAV N+ELP NSR HI+E F+AGLFDY+IATDD KEK++ DGD + VINFDMPQSA YVHRIGRTGRA++ G SVSLV+PEE VFEEI+++LGE DSN IA F T+NAVESLRYRAEDVARSVTKIAVRESRA+DLRNEILNSEKLKAHFQ+NPKDLDLLKHDK LSKKAPA HLRDVP YLLDPTTQEASKIVKL A M N N+ARR+G +GK R ++DPLKS SA+ K KGGMKRKG + D + K K +
Sbjct: 30 LGLDPRLVRALTKKGVDKPTPIQRVAIPLILEGKDVVARATTGSGKTFAYVLPLLQKLFSDSGSKKKLGPTAFVLIPTRELCQQVYSEILSLIELCRVQLKVIQLTSTMSSSDLSTALAGPPDILVSTPACIQSCFSKGVLRPTSVQDSLSMLVLDEADLLLSYGYEDDLKALTAHIPRRCQCLLMSATSSADVEKLKKLILHNPFILTLPEEGDTKDEIIPKNVQQFWISCSARDKLVYVLALLKLELVQKKVLIFTNTIDMSFRLKLFFEQFGIKSAVLNAELPQNSRLHILEEFNAGLFDYLIATDDNQLKEKKQVDGDSHTERKRSRKHAKQKLDSEFGVVRGIDFKNVHTVINFDMPQSAAGYVHRIGRTGRAYNTGASVSLVSPEEMKVFEEIKSILGERENKDSNFIAPFPLLTKNAVESLRYRAEDVARSVTKIAVRESRAKDLRNEILNSEKLKAHFQDNPKDLDLLKHDKVLSKKAPASHLRDVPEYLLDPTTQEASKIVKLARAAM-GNTNAARRKGFKGKFRKDKDPLKSLSAETPKKGFKGGMKRKGKEKDDSHRHKKKQS 602
BLAST of DCAR_004695 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6P6T6J9 ((LOW QUALITY PROTEIN: DEAD-box ATP-dependent RNA helicase 16-like {ECO:0000313|RefSeq:XP_027073446.1}))
HSP 1 Score: 757.673 bits (1955), Expect = 0.000e+0
Identity = 384/579 (66.32%), Postives = 450/579 (77.72%), Query Frame = 0
Match: A0A6P6T6J9 ((LOW QUALITY PROTEIN: DEAD-box ATP-dependent RNA helicase 16-like {ECO:0000313|RefSeq:XP_027073446.1}))
HSP 1 Score: 757.673 bits (1955), Expect = 0.000e+0
Identity = 384/579 (66.32%), Postives = 450/579 (77.72%), Query Frame = 0
Query: 23 KSFEELGVDARLIRALSKKGVNKPTPIQCSAVPLILEGKDVVTRAHTGSGKTFAYLLPVLQKLFSEVSEQKKAAPAVFIVVPTRELCQQVYNEAMSLIELCRVQLKVVQFTTDAQINDLKVALAGRPDILVSTPGGILKCLKLGVLQGKQIQDSLSVLVLDEADLLLSFGHGNDLKALTVHIPRQCQCLLMSATISEEVETLARPLLHNPYILTLCDNGNEKDEIVSKNIQQYYIKCSSRDKLVHILALLKLELVQKKVLIFTNTIDMSFRLKLFLEQFGIKSAVFNSELPLNSRKHIIEGFSAGLFDYMIATDDGDSKEKEKDGDGDNA------------------------------VINFDMPQSAVRYVHRIGRTGRAHDLGESVSLVAPEEENVFEEIEALLGE-NGPDSNPIAKFRFPTENAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQNNPKDLDLLKHDKPLSKKAPAPHLRDVPAYLLDPTTQEASKIVKLTSAVMRRNNNSARRRGSQGKSR-NRDPLKSFSAQGQKNSSKGGMKRKGTDGDSGKKSKTKHT 569
+SFE+LG+D RLIRAL KK ++KPTPIQ A+PLILEGKDVV RA TGSGKTFAYLLP+LQKLFS+ + AP FI+ PTRELCQQVY E MSLIELCRVQLKVVQ T+ +DL+ ALAG PDILVSTP + CL GVLQ K +QDSLS++VLDEADLLLS+G+ +DLKALT H+PR+CQCLLMSAT S +VE L R +LHNPYILTL + G+ KD+I+ N+QQ+YI C++RDKLVH LALLKLELVQKKVLIFTN ID S+RLKLF EQFGIKSAV N+ELP NSR HI+E F+AGLFDY+IATDD +EK+K G NA V+NF+MPQSA YVHRIGRTGRA++ G SVSLV+PEE ++FE+I++++GE + DSN IA F T+NAVE LRYRAEDVARSVTK+AVRESRAQDLRNEILNSEKLKAHFQ+NP+DLDLLKHDK LSKK PAPHLRDVP YLLDPTTQEA KIVKL A M NNN+ARR+G +GK R +RDPLK+FSA+ + SKGGM+R+G D+ K K K T
Sbjct: 50 RSFEDLGLDPRLIRALIKKNIDKPTPIQRVAIPLILEGKDVVARAKTGSGKTFAYLLPLLQKLFSDSPSKHNQAPTAFILAPTRELCQQVYAEVMSLIELCRVQLKVVQLTSSMSNSDLRTALAGPPDILVSTPACVHTCLSDGVLQQKAVQDSLSIIVLDEADLLLSYGYEDDLKALTAHVPRRCQCLLMSATSSADVEKLKRLILHNPYILTLPEVGDLKDDIIPXNVQQFYISCTARDKLVHXLALLKLELVQKKVLIFTNAIDTSYRLKLFFEQFGIKSAVLNAELPQNSRLHILEEFNAGLFDYLIATDDSQPQEKKKFDSGSNAEQKKARKHXKQKLDAEFGVVRGIDFKNVHTVLNFEMPQSAXGYVHRIGRTGRAYNTGASVSLVSPEENDMFEDIKSIIGESDNMDSNFIAPFPLLTKNAVEXLRYRAEDVARSVTKVAVRESRAQDLRNEILNSEKLKAHFQDNPRDLDLLKHDKVLSKKDPAPHLRDVPEYLLDPTTQEARKIVKLVRAAM-GNNNTARRKGFKGKFRKSRDPLKTFSAEASRRPSKGGMRRRGPGCDASHKRKRKET 627
BLAST of DCAR_004695 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6I9UDZ9 ((DEAD-box ATP-dependent RNA helicase 16 {ECO:0000313|RefSeq:XP_011099415.1}))
HSP 1 Score: 755.362 bits (1949), Expect = 0.000e+0
Identity = 383/569 (67.31%), Postives = 448/569 (78.73%), Query Frame = 0
Match: A0A6I9UDZ9 ((DEAD-box ATP-dependent RNA helicase 16 {ECO:0000313|RefSeq:XP_011099415.1}))
HSP 1 Score: 755.362 bits (1949), Expect = 0.000e+0
Identity = 383/569 (67.31%), Postives = 448/569 (78.73%), Query Frame = 0
Query: 24 SFEELGVDARLIRALSKKGVNKPTPIQCSAVPLILEGKDVVTRAHTGSGKTFAYLLPVLQKLFSEVSEQKKAAPAVFIVVPTRELCQQVYNEAMSLIELCRVQLKVVQFTTDAQINDLKVALAGRPDILVSTPGGILKCLKLGVLQGKQIQDSLSVLVLDEADLLLSFGHGNDLKALTVHIPRQCQCLLMSATISEEVETLARPLLHNPYILTLCDNGNEKDEIVSKNIQQYYIKCSSRDKLVHILALLKLELVQKKVLIFTNTIDMSFRLKLFLEQFGIKSAVFNSELPLNSRKHIIEGFSAGLFDYMIATDDGDSKEKEKDGDGD-----------------------------NAVINFDMPQSAVRYVHRIGRTGRAHDLGESVSLVAPEEENVFEEIEALLGE-NGPDSNPIAKFRFPTENAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQNNPKDLDLLKHDKPLSKKAPAPHLRDVPAYLLDPTTQEASKIVKLTSAVMRRNNNSARRRGSQGK-SRNRDPLKSFSAQGQKNSSKGGMKRKGTDGDSG 561
SFEELG+D+RLIRALSKK + KPTPIQ A+PLILEGKDVV RA TGSGKTFAYLLP+LQKLF++ +K +APA FI+VPTRELCQQVY+EAMSLIELCRVQLKVVQ T+ +DLK +LAG PDI+VSTP + CL G+LQ + +Q+SLSVLVLDEADLLLS+G+ +DLKALT H+P++CQCLLMSAT S +VE L + +LHNPYILTL + G+ KD+I+ KN+QQ+YI CS+RDKLVHILALLKLELVQKKVLIF N+IDMSFRLKLF EQFGIKSAV N+ELP NSR HI+E F+AGLFDY+IATD + E+ D + + V+NF+MPQ+A YVHRIGRTGRA++ G SVSLV+PEE +FEEI++LLGE + DS IA F ++NAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQ+NPKDLDLLKHDK LSK APA HLRDVP YLLDPTTQEASKIVKL A M N +S RR+G +GK R+RDPLK+FSA+G K GMKRKG + D G
Sbjct: 44 SFEELGLDSRLIRALSKKSIEKPTPIQRVAIPLILEGKDVVARAKTGSGKTFAYLLPLLQKLFADSPSKKSSAPAAFILVPTRELCQQVYSEAMSLIELCRVQLKVVQLTSTMSPSDLKTSLAGFPDIIVSTPACVQTCLSSGMLQARALQESLSVLVLDEADLLLSYGYEDDLKALTAHVPKRCQCLLMSATSSADVEKLKKLILHNPYILTLPEVGDVKDDIIPKNVQQFYISCSARDKLVHILALLKLELVQKKVLIFANSIDMSFRLKLFFEQFGIKSAVLNAELPQNSRLHILEEFNAGLFDYLIATDVSQTAEEHNDKESRAPRKKSKKHSKRKLDAEFGVVRGIDFKNVHTVVNFEMPQTAAGYVHRIGRTGRAYNTGASVSLVSPEEMEIFEEIKSLLGESDSVDSKFIAPFPLLSKNAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQDNPKDLDLLKHDKVLSKNAPAQHLRDVPEYLLDPTTQEASKIVKLARAAM-GNPSSTRRKGFRGKFKRSRDPLKTFSAEGPKRPHGAGMKRKGKNQDDG 611
BLAST of DCAR_004695 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1U7WRX2 ((DEAD-box ATP-dependent RNA helicase 16 {ECO:0000313|RefSeq:XP_009776985.1}))
HSP 1 Score: 745.732 bits (1924), Expect = 0.000e+0
Identity = 381/575 (66.26%), Postives = 450/575 (78.26%), Query Frame = 0
Match: A0A1U7WRX2 ((DEAD-box ATP-dependent RNA helicase 16 {ECO:0000313|RefSeq:XP_009776985.1}))
HSP 1 Score: 745.732 bits (1924), Expect = 0.000e+0
Identity = 381/575 (66.26%), Postives = 450/575 (78.26%), Query Frame = 0
Query: 28 LGVDARLIRALSKKGVNKPTPIQCSAVPLILEGKDVVTRAHTGSGKTFAYLLPVLQKLF-SEVSEQKKAAPAVFIVVPTRELCQQVYNEAMSLIELCRVQLKVVQFTTDAQINDLKVALAGRPDILVSTPGGILKCLKLGVLQGKQIQDSLSVLVLDEADLLLSFGHGNDLKALTVHIPRQCQCLLMSATISEEVETLARPLLHNPYILTLCDNGNEKDEIVSKNIQQYYIKCSSRDKLVHILALLKLELVQKKVLIFTNTIDMSFRLKLFLEQFGIKSAVFNSELPLNSRKHIIEGFSAGLFDYMIATDDGDSKEKEKDGDGDNA------------------------------VINFDMPQSAVRYVHRIGRTGRAHDLGESVSLVAPEEENVFEEIEALLGENGPD-SNPIAKFRFPTENAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQNNPKDLDLLKHDKPLSKKAPAPHLRDVPAYLLDPTTQEASKIVKLTSAVMRRNNNSARRRGSQGK-SRNRDPLKSFSAQGQKNSSKGGMKRKGTDGDSGKKSKTKHT 569
LGVD RLIRAL+KK + KPTPIQ A+PLILEGKDVV RA TGSGKTFAYLLP+LQKLF S+ K AP I+VPTRELCQQV +EA SLIELCRVQL++VQ T+ +++LK LAG P+I+VSTP I CLK GV+Q K +QDSLS+L+LDEADLLLS+G+ +DLKALT H+PR+CQCLLMSAT S +VE L + +LHNPYILTL + G+ KD+I+ KN+QQ+YI C++RDKLVHILALLKLELVQKKVLIFTN+IDMSFRLKLF EQFGIKSAV N+ELP +SR HI+E F+AGLFDY+IATD+ S+ KE+ D + + VINF+MPQ+A YVHRIGRTGRA++ G SVSLV+ EE +FEEI++LLGEN S IA F ++NAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQ+NPKDLDLLKHDK LSKKAPAPHLRDVP YL+DPTTQEASKIVKL A M N N++R +GS+G+ R+RDPLK+FSA+ K + KGGMKRK D D+G K K KH+
Sbjct: 20 LGVDPRLIRALTKKSILKPTPIQRVAIPLILEGKDVVARAKTGSGKTFAYLLPLLQKLFTSQSPSTKNLAPTALILVPTRELCQQVCSEANSLIELCRVQLRLVQLTSSMSVSELKTTLAGPPEIVVSTPACIQTCLKNGVIQAKAVQDSLSILILDEADLLLSYGYEDDLKALTSHVPRRCQCLLMSATSSSDVEKLKKLILHNPYILTLPEVGDTKDDIIPKNVQQFYISCAARDKLVHILALLKLELVQKKVLIFTNSIDMSFRLKLFFEQFGIKSAVLNAELPQSSRLHILEEFNAGLFDYLIATDESQSEGKEQVDDQNGSERKKSKKHRKHKLDAEFGVVRGIDFKNVYTVINFEMPQTAAGYVHRIGRTGRAYNTGASVSLVSAEETEIFEEIKSLLGENEDKVSQFIAPFPLLSKNAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQDNPKDLDLLKHDKMLSKKAPAPHLRDVPDYLVDPTTQEASKIVKLARAAM-GNTNASRGKGSKGRFKRSRDPLKTFSAEAPKRAGKGGMKRKAKDTDNGHKYKKKHS 593
BLAST of DCAR_004695 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1S3YVT9 ((DEAD-box ATP-dependent RNA helicase 16-like {ECO:0000313|RefSeq:XP_016456248.1}))
HSP 1 Score: 745.732 bits (1924), Expect = 0.000e+0
Identity = 381/575 (66.26%), Postives = 450/575 (78.26%), Query Frame = 0
Match: A0A1S3YVT9 ((DEAD-box ATP-dependent RNA helicase 16-like {ECO:0000313|RefSeq:XP_016456248.1}))
HSP 1 Score: 745.732 bits (1924), Expect = 0.000e+0
Identity = 381/575 (66.26%), Postives = 450/575 (78.26%), Query Frame = 0
Query: 28 LGVDARLIRALSKKGVNKPTPIQCSAVPLILEGKDVVTRAHTGSGKTFAYLLPVLQKLF-SEVSEQKKAAPAVFIVVPTRELCQQVYNEAMSLIELCRVQLKVVQFTTDAQINDLKVALAGRPDILVSTPGGILKCLKLGVLQGKQIQDSLSVLVLDEADLLLSFGHGNDLKALTVHIPRQCQCLLMSATISEEVETLARPLLHNPYILTLCDNGNEKDEIVSKNIQQYYIKCSSRDKLVHILALLKLELVQKKVLIFTNTIDMSFRLKLFLEQFGIKSAVFNSELPLNSRKHIIEGFSAGLFDYMIATDDGDSKEKEKDGDGDNA------------------------------VINFDMPQSAVRYVHRIGRTGRAHDLGESVSLVAPEEENVFEEIEALLGENGPD-SNPIAKFRFPTENAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQNNPKDLDLLKHDKPLSKKAPAPHLRDVPAYLLDPTTQEASKIVKLTSAVMRRNNNSARRRGSQGK-SRNRDPLKSFSAQGQKNSSKGGMKRKGTDGDSGKKSKTKHT 569
LGVD RLIRAL+KK + KPTPIQ A+PLILEGKDVV RA TGSGKTFAYLLP+LQKLF S+ K AP I+VPTRELCQQV +EA SLIELCRVQL++VQ T+ +++LK LAG P+I+VSTP I CLK GV+Q K +QDSLS+L+LDEADLLLS+G+ +DLKALT H+PR+CQCLLMSAT S +VE L + +LHNPYILTL + G+ KD+I+ KN+QQ+YI C++RDKLVHILALLKLELVQKKVLIFTN+IDMSFRLKLF EQFGIKSAV N+ELP +SR HI+E F+AGLFDY+IATD+ S+ KE+ D + + VINF+MPQ+A YVHRIGRTGRA++ G SVSLV+ EE +FEEI++LLGEN S IA F ++NAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQ+NPKDLDLLKHDK LSKKAPAPHLRDVP YL+DPTTQEASKIVKL A M N N++R +GS+G+ R+RDPLK+FSA+ K + KGGMKRK D D+G K K KH+
Sbjct: 20 LGVDPRLIRALTKKSILKPTPIQRVAIPLILEGKDVVARAKTGSGKTFAYLLPLLQKLFTSQSPSTKNLAPTALILVPTRELCQQVCSEANSLIELCRVQLRLVQLTSSMSVSELKTTLAGPPEIVVSTPACIQTCLKNGVIQAKAVQDSLSILILDEADLLLSYGYEDDLKALTSHVPRRCQCLLMSATSSSDVEKLKKLILHNPYILTLPEVGDTKDDIIPKNVQQFYISCAARDKLVHILALLKLELVQKKVLIFTNSIDMSFRLKLFFEQFGIKSAVLNAELPQSSRLHILEEFNAGLFDYLIATDESQSEGKEQVDDQNGSERKKSKKHRKHKLDAEFGVVRGIDFKNVYTVINFEMPQTAAGYVHRIGRTGRAYNTGASVSLVSAEETEIFEEIKSLLGENEDKVSQFIAPFPLLSKNAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQDNPKDLDLLKHDKMLSKKAPAPHLRDVPDYLVDPTTQEASKIVKLARAAM-GNTNASRGKGSKGRFKRSRDPLKTFSAEAPKRAGKGGMKRKAKDTDNGHKYKKKHS 593
BLAST of DCAR_004695 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1J6IPD8 ((Dead-box atp-dependent rna helicase 16 {ECO:0000313|EMBL:OIT06116.1}))
HSP 1 Score: 744.191 bits (1920), Expect = 0.000e+0
Identity = 380/575 (66.09%), Postives = 451/575 (78.43%), Query Frame = 0
Match: A0A1J6IPD8 ((Dead-box atp-dependent rna helicase 16 {ECO:0000313|EMBL:OIT06116.1}))
HSP 1 Score: 744.191 bits (1920), Expect = 0.000e+0
Identity = 380/575 (66.09%), Postives = 451/575 (78.43%), Query Frame = 0
Query: 28 LGVDARLIRALSKKGVNKPTPIQCSAVPLILEGKDVVTRAHTGSGKTFAYLLPVLQKLFSEVS-EQKKAAPAVFIVVPTRELCQQVYNEAMSLIELCRVQLKVVQFTTDAQINDLKVALAGRPDILVSTPGGILKCLKLGVLQGKQIQDSLSVLVLDEADLLLSFGHGNDLKALTVHIPRQCQCLLMSATISEEVETLARPLLHNPYILTLCDNGNEKDEIVSKNIQQYYIKCSSRDKLVHILALLKLELVQKKVLIFTNTIDMSFRLKLFLEQFGIKSAVFNSELPLNSRKHIIEGFSAGLFDYMIATDDGDSKEKEK--DGDGDN----------------------------AVINFDMPQSAVRYVHRIGRTGRAHDLGESVSLVAPEEENVFEEIEALLGENGPD-SNPIAKFRFPTENAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQNNPKDLDLLKHDKPLSKKAPAPHLRDVPAYLLDPTTQEASKIVKLTSAVMRRNNNSARRRGSQGK-SRNRDPLKSFSAQGQKNSSKGGMKRKGTDGDSGKKSKTKHT 569
LGVD RLIRAL+KK + KPTPIQ A+PLILEGKDVV RA TGSGKTFAYLLP+LQKLF+ S K AP I+VPTRELCQQV +EA SLIELCRVQL++VQ T+ +++LK LAG P+I++STP I CLK G++Q K +QDSLS+L+LDEADLLLS+G+ +DLKALT H+PR+CQCLLMSAT S +VE L + +LHNPYILTL + G+ KD+I+ KN+QQ+YI C++RDKLVHILALLKLELVQKKVLIFTN+IDMSFRLKLF EQFGIKSAV N+ELP +SR HI+E F+AGLFDY+IATD+ S+ KE+ D +G+ VINF+MPQ+A YVHRIGRTGRA++ G SVSLV+ EE +FEEI++LLGEN S IA F ++NAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQ+NPKDLDLLKHDK LSKKAPAPHLRDVP YL+DPTTQEASKIVKL A M N N++R +GS+G+ R+RDPLK+FSA+ K + KGGMKRK D D+G K K KH+
Sbjct: 21 LGVDPRLIRALTKKSILKPTPIQRVAIPLILEGKDVVARAKTGSGKTFAYLLPLLQKLFTTQSPSTKNLAPTALILVPTRELCQQVCSEANSLIELCRVQLRLVQLTSSMSVSELKTTLAGPPEIVISTPACIQTCLKNGIIQAKAVQDSLSILILDEADLLLSYGYEDDLKALTSHVPRRCQCLLMSATSSSDVEKLKKLILHNPYILTLPEVGDTKDDIIPKNVQQFYISCAARDKLVHILALLKLELVQKKVLIFTNSIDMSFRLKLFFEQFGIKSAVLNAELPQSSRLHILEEFNAGLFDYLIATDESQSEGKEQVDDQNGNERKKSKKHRKHKLDAEFGVVRGIDFKNVYTVINFEMPQTAAGYVHRIGRTGRAYNTGASVSLVSAEETEMFEEIKSLLGENDDKVSQFIAPFPLLSKNAVESLRYRAEDVARSVTKIAVRESRAQDLRNEILNSEKLKAHFQDNPKDLDLLKHDKMLSKKAPAPHLRDVPDYLVDPTTQEASKIVKLARAAM-GNTNASRGKGSKGRFQRSRDPLKTFSAEAPKRAGKGGMKRKAKDTDNGHKYKKKHS 594
| Match Name | Stats | Description |
|---|---|---|
| A0A5B7BD55 | E-Value: 0.000e+0, PID: 67.22 | (Uncharacterized protein {ECO:0000313|EMBL:MPA6680... [more] |
| A0A5J5BUE2 | E-Value: 0.000e+0, PID: 67.10 | (Uncharacterized protein {ECO:0000313|EMBL:KAA8546... [more] |
| A0A7J7HZZ5 | E-Value: 0.000e+0, PID: 65.39 | (Uncharacterized protein {ECO:0000313|EMBL:KAF5958... [more] |
| A0A068U290 | E-Value: 0.000e+0, PID: 66.67 | (Uncharacterized protein {ECO:0000313|EMBL:CDP0263... [more] |
| A0A2R6PAS4 | E-Value: 0.000e+0, PID: 67.42 | (DEAD-box ATP-dependent RNA helicase {ECO:0000313|... [more] |
| A0A6P6T6J9 | E-Value: 0.000e+0, PID: 66.32 | (LOW QUALITY PROTEIN: DEAD-box ATP-dependent RNA h... [more] |
| A0A6I9UDZ9 | E-Value: 0.000e+0, PID: 67.31 | (DEAD-box ATP-dependent RNA helicase 16 {ECO:00003... [more] |
| A0A1U7WRX2 | E-Value: 0.000e+0, PID: 66.26 | (DEAD-box ATP-dependent RNA helicase 16 {ECO:00003... [more] |
| A0A1S3YVT9 | E-Value: 0.000e+0, PID: 66.26 | (DEAD-box ATP-dependent RNA helicase 16-like {ECO:... [more] |
| A0A1J6IPD8 | E-Value: 0.000e+0, PID: 66.09 | (Dead-box atp-dependent rna helicase 16 {ECO:00003... [more] |
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back to topAnalysis:
| Name | Description |
|---|---|
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 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. |