Resource Type:
Polypeptide
Name:
DCAR_007498
Identifier:
DCAR_007498.mRNA-protein
Sequence:
MAGSQGGASRRSSMSKKKASETTTSRKSLTTSRSMGLSGERTVKRLRLSK
ALTIPETTSVYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIAR
ELNLEETPVSKVMTRNPVFVISDTLAVEALQKMVQGKFRHLPVVEKGEVI
AILDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGGSTSGPNTFIET
LRERIFKPSLSTILSESSKIVTVMPVDTVLMASKKMLECQTSCAIVTVDE
KPQGILTSKDILMRVIALDLPPESTLVEKVMTPNPECATVDTPIVEALHT
MHDGKFLHLPVLNGDGIVVDVIDVLHITHAAVTTPALTSITDKAQAYLTY
EGSRMDILLFTYSMGSTAEVNNEAANSMMQKFWDSAMDSNTVDDDETRSE
SSLKLLSEATETARPLPYPSTTVPTAFAFKIQDRKGRMHRFTCDTRNLTE
LITAILQRVGDDIDRSNLPQILYEDEDHDHVVLASDSDLVAAVEHARSAG
WKGLKLHLDYSGAPRRRRGSGSGSLDYAQPDAWASAYSSVAAGAALVAGL
GVLAFLRRAGN*
Sequence Length:
562
Sequence Checksum:
5247e566a302bcfb46e72440af0f4df0
View location in JBrowse:
Organism:
Relationship:
| Relationships |
|---|
| The polypeptide, DCAR_007498, derives from mRNA, DCAR_007498. |
Blast Results:
The following BLAST results are available for this feature:
BLAST of DCAR_007498 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_007498 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2R6PS87 ((CBS domain-containing protein {ECO:0000313|EMBL:PSR95951.1}))
HSP 1 Score: 828.935 bits (2140), Expect = 0.000e+0
Identity = 436/571 (76.36%), Postives = 487/571 (85.29%), Query Frame = 0
Match: A0A2R6PS87 ((CBS domain-containing protein {ECO:0000313|EMBL:PSR95951.1}))
HSP 1 Score: 828.935 bits (2140), Expect = 0.000e+0
Identity = 436/571 (76.36%), Postives = 487/571 (85.29%), Query Frame = 0
Query: 1 MAGSQGGASRR-------SSMSKKKASET---TTSRKSLTTSRSMGLSGERTVKRLRLSKALTIPETTSVYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARELNLEETPVSKVMTRNPVFVISDTLAVEALQKMVQGKFRHLPVVEKGEVIAILDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGGSTSGPNTFIETLRERIFKPSLSTILSESSKIVTVMPVDTVLMASKKMLECQTSCAIVTVDEKPQGILTSKDILMRVIALDLPPESTLVEKVMTPNPECATVDTPIVEALHTMHDGKFLHLPVLNGDGIVVDVIDVLHITHAAVTTPALTSITDKAQAYLTYEGSRMDILLFTYSMGSTAEVNNEAANSMMQKFWDSAMDSNTVDDDE-TRSESSLKLLSEATETARPLPYPSTTVPTAFAFKIQDRKGRMHRFTCDTRNLTELITAILQRVGDDIDRSNLPQILYEDEDHDHVVLASDSDLVAAVEHARSAGWKGLKLHLDYSGAPRRRRGSGSGSLDYAQPDAWASAYSSVAAGAALVAGLGVLAFLRRAG 560
M SQGG+SRR SS +KKKASE + RKSL+ SRSMGL+GERTV+RLRLSKALT+P++TS+YEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIA ELNL+ETPVSKVMTRNPVFV+SDTLAVEALQKMVQGKFRHLPVVE GEVIA+LDIAKCLYDAIARMERA EKGKAIAAAVEGVEKHWGGS SGPNTFIETLRER+F+PSLSTIL E+SKIVTV P DTVL+A+KKMLEC+ S A+V V+ KP GILTSKDILMR+IA +LPPESTLVEKVMTPNPECATVDTPIV+ALHTMHDGKFLHLPV++ +G+ V V+DVLHITHAAV T +GSTA V+NEAA++MMQ FWDSAM + +DD+E TRS++SLK+ SE ET+R LPYPS+++P AF FKIQD+KGRMHRF CDTRNLT+L+TAILQRVGDDIDR+NLPQILYEDEDHD VVLASDSDLVAAV+HAR AGWKGLKLHLDYSG R+GSGSGSLDYAQ DAWASAYS+VAAGAALVAGLGVL FLRR+G
Sbjct: 1 MTTSQGGSSRRNVSLTSSSSQAKKKASENGGPDSCRKSLSPSRSMGLTGERTVRRLRLSKALTVPDSTSIYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIAHELNLQETPVSKVMTRNPVFVLSDTLAVEALQKMVQGKFRHLPVVENGEVIALLDIAKCLYDAIARMERATEKGKAIAAAVEGVEKHWGGSISGPNTFIETLRERMFRPSLSTILPENSKIVTVSPTDTVLVATKKMLECRISSAVVIVENKPWGILTSKDILMRIIAQNLPPESTLVEKVMTPNPECATVDTPIVDALHTMHDGKFLHLPVVDREGVAVAVVDVLHITHAAVAT-----------------------------VGSTAGVSNEAASAMMQNFWDSAMALDPLDDEEDTRSDNSLKMASEGAETSRSLPYPSSSLPNAFPFKIQDKKGRMHRFICDTRNLTDLVTAILQRVGDDIDRNNLPQILYEDEDHDKVVLASDSDLVAAVDHARLAGWKGLKLHLDYSGTRGHRKGSGSGSLDYAQSDAWASAYSAVAAGAALVAGLGVLVFLRRSG 542
BLAST of DCAR_007498 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2Z7CCY4 ((Uncharacterized protein {ECO:0000313|EMBL:KZV44545.1}))
HSP 1 Score: 825.083 bits (2130), Expect = 0.000e+0
Identity = 418/541 (77.26%), Postives = 472/541 (87.25%), Query Frame = 0
Match: A0A2Z7CCY4 ((Uncharacterized protein {ECO:0000313|EMBL:KZV44545.1}))
HSP 1 Score: 825.083 bits (2130), Expect = 0.000e+0
Identity = 418/541 (77.26%), Postives = 472/541 (87.25%), Query Frame = 0
Query: 21 ETTTSRKSLTTSRSMGLSGERTVKRLRLSKALTIPETTSVYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARELNLEETPVSKVMTRNPVFVISDTLAVEALQKMVQGKFRHLPVVEKGEVIAILDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGGSTSGPNTFIETLRERIFKPSLSTILSESSKIVTVMPVDTVLMASKKMLECQTSCAIVTVDEKPQGILTSKDILMRVIALDLPPESTLVEKVMTPNPECATVDTPIVEALHTMHDGKFLHLPVLNGDGIVVDVIDVLHITHAAVTTPALTSITDKAQAYLTYEGSRMDILLFTYSMGSTAEVNNEAANSMMQKFWDSAMDSNTVDDDETRSESSLKLLSEATETARPLPYPSTTVPTAFAFKIQDRKGRMHRFTCDTRNLTELITAILQRVGDDIDRSNLPQILYEDEDHDHVVLASDSDLVAAVEHARSAGWKGLKLHLDYSGAPRRRRGSGSGSLDYAQPDAWASAYSSVAAGAALVAGLGVLAFLRRAGN 561
++++ RKSL+ SRSMGL+GERTVKRLRLSKALT+PETTS+ EACRRMAARR+DALLLTDSNALLCGILTDKDIATRVIARE+NLEETPVSKVMTRNPVFV+SDTLAVEALQKMVQGKFRHLPVVE GEVIA+LDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWG S SG NTFIETLRER+F+PSLSTI+SE+SKIVT+ P DTVL+A+KKMLE +TS A+V V+ KP+GILTSKD+LMRVIA DLPPESTLVEKVMTPNPECATVDTPIV+ALHTMHDGKFLHLPV++ DG+V V+DVLHITHAAV T +G+TA VNNEAAN++MQ+FWDSAM D+DETRSESSLK+ S+ ET R LPYPS+T+P+ FAFK+QDRKGRMHRF CDT+N+ ELITAILQR+GD+IDR+NLP ILYEDED+D VVLASDSDL AAV+HARSAGWKGLKLHLDYSG P RR+GS SG L+YAQ DAWASAYS+VAAGAA+VAGLG+LAFL+RAGN
Sbjct: 41 DSSSHRKSLSASRSMGLTGERTVKRLRLSKALTVPETTSIIEACRRMAARRLDALLLTDSNALLCGILTDKDIATRVIAREVNLEETPVSKVMTRNPVFVLSDTLAVEALQKMVQGKFRHLPVVENGEVIALLDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGTSVSGTNTFIETLRERMFRPSLSTIISENSKIVTLDPSDTVLVAAKKMLEIRTSSAVVIVENKPRGILTSKDMLMRVIAQDLPPESTLVEKVMTPNPECATVDTPIVDALHTMHDGKFLHLPVVDRDGVVAAVVDVLHITHAAVAT-----------------------------VGNTAGVNNEAANNLMQRFWDSAMALTPDDEDETRSESSLKMPSDGGETGRSLPYPSSTMPSTFAFKVQDRKGRMHRFICDTQNMAELITAILQRIGDEIDRNNLPHILYEDEDNDKVVLASDSDLQAAVDHARSAGWKGLKLHLDYSGTPVRRKGSNSGGLEYAQADAWASAYSTVAAGAAIVAGLGILAFLKRAGN 552
BLAST of DCAR_007498 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J0GB18 ((CBS {ECO:0000313|EMBL:GFZ08006.1}))
HSP 1 Score: 824.313 bits (2128), Expect = 0.000e+0
Identity = 432/571 (75.66%), Postives = 486/571 (85.11%), Query Frame = 0
Match: A0A7J0GB18 ((CBS {ECO:0000313|EMBL:GFZ08006.1}))
HSP 1 Score: 824.313 bits (2128), Expect = 0.000e+0
Identity = 432/571 (75.66%), Postives = 486/571 (85.11%), Query Frame = 0
Query: 1 MAGSQGGASRR-------SSMSKKKASET---TTSRKSLTTSRSMGLSGERTVKRLRLSKALTIPETTSVYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARELNLEETPVSKVMTRNPVFVISDTLAVEALQKMVQGKFRHLPVVEKGEVIAILDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGGSTSGPNTFIETLRERIFKPSLSTILSESSKIVTVMPVDTVLMASKKMLECQTSCAIVTVDEKPQGILTSKDILMRVIALDLPPESTLVEKVMTPNPECATVDTPIVEALHTMHDGKFLHLPVLNGDGIVVDVIDVLHITHAAVTTPALTSITDKAQAYLTYEGSRMDILLFTYSMGSTAEVNNEAANSMMQKFWDSAMDSNTVDDDE-TRSESSLKLLSEATETARPLPYPSTTVPTAFAFKIQDRKGRMHRFTCDTRNLTELITAILQRVGDDIDRSNLPQILYEDEDHDHVVLASDSDLVAAVEHARSAGWKGLKLHLDYSGAPRRRRGSGSGSLDYAQPDAWASAYSSVAAGAALVAGLGVLAFLRRAG 560
M SQGG+SRR SS +KKKASE + RKSL+ SRSMGL+GERTV+RLRLSKALT+P++TS+YEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIA E+NLEETPVSKVMTRNPVFV+SDTLAVEALQKMV+GKFRHLPVVE GEVIA+LDIAKCLYDAIARMERA EKGKAIAAAVEGVEKHWGGS SGPNTFIETLRER+F+PSLSTILSE+SK+VTV P DTVL+A+KKMLEC+ S A+V V+ KP+GILTSKDILMR+IA +LPPESTLVEKVMTPNPECATVDTPIV+ALHTMHDGKFLHLPV++ +G+ V V+DVLHITHAAV +GSTA V+NEAA++MMQ FWDSAM + +DD+E TRS++SLK+ SE ET+R LPYPS+++P AF FKIQD+KGRMHRF CD RNLT+L+TAILQRVGDDIDR+NLPQILYEDEDHD VVLASDSDLVAAV+HAR AGWKGLKLHLDY G R+GSGSGSLDYAQ DAWASAYS+VAAGAALVAGLGVL FLRR+G
Sbjct: 1 MTTSQGGSSRRNMSLTSSSSQAKKKASENGGPDSCRKSLSPSRSMGLTGERTVRRLRLSKALTVPDSTSIYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIAHEVNLEETPVSKVMTRNPVFVLSDTLAVEALQKMVKGKFRHLPVVENGEVIALLDIAKCLYDAIARMERATEKGKAIAAAVEGVEKHWGGSISGPNTFIETLRERMFRPSLSTILSENSKLVTVSPTDTVLVATKKMLECRISSAVVIVENKPRGILTSKDILMRIIAQNLPPESTLVEKVMTPNPECATVDTPIVDALHTMHDGKFLHLPVVDREGVAVAVVDVLHITHAAVAM-----------------------------VGSTAGVSNEAASTMMQNFWDSAMALDPLDDEEDTRSDNSLKMASEGAETSRSLPYPSSSLPNAFPFKIQDKKGRMHRFICDARNLTDLVTAILQRVGDDIDRNNLPQILYEDEDHDKVVLASDSDLVAAVDHARLAGWKGLKLHLDYCGTHGHRKGSGSGSLDYAQSDAWASAYSAVAAGAALVAGLGVLVFLRRSG 542
BLAST of DCAR_007498 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J6G4U2 ((Uncharacterized protein {ECO:0000313|EMBL:KAF4377822.1}))
HSP 1 Score: 820.076 bits (2117), Expect = 0.000e+0
Identity = 423/570 (74.21%), Postives = 477/570 (83.68%), Query Frame = 0
Match: A0A7J6G4U2 ((Uncharacterized protein {ECO:0000313|EMBL:KAF4377822.1}))
HSP 1 Score: 820.076 bits (2117), Expect = 0.000e+0
Identity = 423/570 (74.21%), Postives = 477/570 (83.68%), Query Frame = 0
Query: 4 SQGGASRRS-SMS------KKKASET----TTSRKSLTTSRSMGLSGERTVKRLRLSKALTIPETTSVYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARELNLEETPVSKVMTRNPVFVISDTLAVEALQKMVQGKFRHLPVVEKGEVIAILDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGGSTSGPNTFIETLRERIFKPSLSTILSESSKIVTVMPVDTVLMASKKMLECQTSCAIVTVDEKPQGILTSKDILMRVIALDLPPESTLVEKVMTPNPECATVDTPIVEALHTMHDGKFLHLPVLNGDGIVVDVIDVLHITHAAVTTPALTSITDKAQAYLTYEGSRMDILLFTYSMGSTAEVNNEAANSMMQKFWDSAMDSNTVDDDETRSESSLKLLSEATETARPLPYPSTTVPTAFAFKIQDRKGRMHRFTCDTRNLTELITAILQRVGDDIDRSNLPQILYEDEDHDHVVLASDSDLVAAVEHARSAGWKGLKLHLDYSGAPRRRRGSGSGSLDYAQPD-AWASAYSSVAAGAALVAGLGVLAFLRRAGN 561
SQGG SR+S SMS KKK+SE T+RKS +S+SMGL+GERTVKRLRLSKALTIPE+T++ EACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARE+NLEETPVSKVMTRNP FV+SDT AVEALQKMVQGKFRHLPVVE GEVIA+LDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWG + SGPNTFIETLR+R+F+PSLSTI++E+SK+ TV P DTVL A+KKML+ + S A+VTVD KP+GILTSKDILMRVI +LPP+STLVEKVMTPNPECATVDTPIV+ALHTMHDGKFLHLPVL+ DG VV V+DV+HITHAAV T +GSTA VNNEAA++MMQKFWDSAM SN DD+ETRSE+SLKL S+ TET RP PY + + FAFKIQD+KGRMHRFTCD R+LT+LIT+I+QRVG+DIDR NLPQI+YEDEDHD V+LASD+DL AAV+HAR AGWKGLKLHLDYSG R+ SGSG LDYA + AWASAYSSVAAGAALVAGLG+LA+LRR+GN
Sbjct: 3 SQGGGSRKSLSMSNSSLHGKKKSSENGGPPDTARKSFQSSKSMGLTGERTVKRLRLSKALTIPESTTISEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIAREMNLEETPVSKVMTRNPTFVLSDTHAVEALQKMVQGKFRHLPVVENGEVIALLDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGTTISGPNTFIETLRDRMFRPSLSTIIAENSKVATVTPTDTVLTATKKMLDLKLSSAVVTVDNKPRGILTSKDILMRVITQNLPPDSTLVEKVMTPNPECATVDTPIVDALHTMHDGKFLHLPVLDRDGNVVAVVDVIHITHAAVAT-----------------------------VGSTAGVNNEAASTMMQKFWDSAMASND-DDEETRSENSLKLASDGTETGRPFPYTLSGLSNTFAFKIQDKKGRMHRFTCDIRSLTDLITSIIQRVGEDIDRHNLPQIMYEDEDHDKVILASDNDLTAAVDHARQAGWKGLKLHLDYSGTQDRQTISGSGDLDYAHAESAWASAYSSVAAGAALVAGLGILAYLRRSGN 542
BLAST of DCAR_007498 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5BK72 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8542102.1}))
HSP 1 Score: 819.305 bits (2115), Expect = 0.000e+0
Identity = 422/549 (76.87%), Postives = 474/549 (86.34%), Query Frame = 0
Match: A0A5J5BK72 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8542102.1}))
HSP 1 Score: 819.305 bits (2115), Expect = 0.000e+0
Identity = 422/549 (76.87%), Postives = 474/549 (86.34%), Query Frame = 0
Query: 16 KKKASET---TTSRKSLTTSRSMGLSGERTVKRLRLSKALTIPETTSVYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARELNLEETPVSKVMTRNPVFVISDTLAVEALQKMVQGKFRHLPVVEKGEVIAILDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGGSTSGPNTFIETLRERIFKPSLSTILSESSKIVTVMPVDTVLMASKKMLECQTSCAIVTVDEKPQGILTSKDILMRVIALDLPPESTLVEKVMTPNPECATVDTPIVEALHTMHDGKFLHLPVLNGDGIVVDVIDVLHITHAAVTTPALTSITDKAQAYLTYEGSRMDILLFTYSMGSTAEVNNEAANSMMQKFWDSAMDSNTVDDDE-TRSESSLKLLSEATETARPLPYPSTTVPTAFAFKIQDRKGRMHRFTCDTRNLTELITAILQRVGDDIDRSNLPQILYEDEDHDHVVLASDSDLVAAVEHARSAGWKGLKLHLDYSGAPRRRRGSGSGSLDYAQPDAWASAYSSVAAGAALVAGLGVLAFLRRAG 560
+KKASE +RKSL++SRSMGL+GERTVKRLRLSKALTIPETT+++EACRRMAARRVDALLLTDSNALLCGILTDKDI+TRVIARE+NLE+TPVSKVMTRNPVFV+SDTLAVEALQKMVQGKFRHLPVVE GEVIA+LDIAKCLYDAIARMERAAEKGKAIAAAVEGVEK+WG S SGPNTF+ETLRER+F+PSLSTI+SE+SKIVTV P DTVLMA+KKMLEC+ S A+VTV+ KP+GILTSKDILMRVIA +LPPESTLV+KVMTPNPECATVDTPIV+ALHTMHDGKFLHLPV++ DGIVV V+DVLHIT AAV T +GSTA V NEAA+SMMQKFWDSAM +DD+E TRSE SLKL SE ET R +PYPS+++P FAFKIQD++GRMHRF CD R+LT++ITAILQRVGDDIDR+NLPQILYEDED D V+LASDSDL AAV+HARSAGWKGL+LHLDYSG RRR SG+G +DYA PDAWASAYS+VAAGAALVAG G+LA+LRRAG
Sbjct: 23 RKKASENGGHDPARKSLSSSRSMGLTGERTVKRLRLSKALTIPETTTIHEACRRMAARRVDALLLTDSNALLCGILTDKDISTRVIAREVNLEDTPVSKVMTRNPVFVLSDTLAVEALQKMVQGKFRHLPVVENGEVIALLDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKNWGTSVSGPNTFVETLRERMFRPSLSTIISENSKIVTVSPTDTVLMATKKMLECRLSSAVVTVENKPRGILTSKDILMRVIAQNLPPESTLVDKVMTPNPECATVDTPIVDALHTMHDGKFLHLPVVDRDGIVVAVVDVLHITQAAVAT-----------------------------VGSTAGVTNEAASSMMQKFWDSAMALTPLDDEEETRSEGSLKLASEGGETGRSVPYPSSSLPNTFAFKIQDKRGRMHRFNCDVRSLTDIITAILQRVGDDIDRNNLPQILYEDEDSDKVILASDSDLAAAVDHARSAGWKGLRLHLDYSGTLGRRRASGTGGMDYAHPDAWASAYSAVAAGAALVAGFGILAYLRRAG 542
BLAST of DCAR_007498 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A803QXZ3 ((Uncharacterized protein {ECO:0000313|EnsemblPlants:cds.novel_model_2745_5bd9a17a.1.5bd9b137}))
HSP 1 Score: 818.15 bits (2112), Expect = 0.000e+0
Identity = 422/570 (74.04%), Postives = 476/570 (83.51%), Query Frame = 0
Match: A0A803QXZ3 ((Uncharacterized protein {ECO:0000313|EnsemblPlants:cds.novel_model_2745_5bd9a17a.1.5bd9b137}))
HSP 1 Score: 818.15 bits (2112), Expect = 0.000e+0
Identity = 422/570 (74.04%), Postives = 476/570 (83.51%), Query Frame = 0
Query: 4 SQGGASRRS-SMS------KKKASET----TTSRKSLTTSRSMGLSGERTVKRLRLSKALTIPETTSVYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARELNLEETPVSKVMTRNPVFVISDTLAVEALQKMVQGKFRHLPVVEKGEVIAILDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGGSTSGPNTFIETLRERIFKPSLSTILSESSKIVTVMPVDTVLMASKKMLECQTSCAIVTVDEKPQGILTSKDILMRVIALDLPPESTLVEKVMTPNPECATVDTPIVEALHTMHDGKFLHLPVLNGDGIVVDVIDVLHITHAAVTTPALTSITDKAQAYLTYEGSRMDILLFTYSMGSTAEVNNEAANSMMQKFWDSAMDSNTVDDDETRSESSLKLLSEATETARPLPYPSTTVPTAFAFKIQDRKGRMHRFTCDTRNLTELITAILQRVGDDIDRSNLPQILYEDEDHDHVVLASDSDLVAAVEHARSAGWKGLKLHLDYSGAPRRRRGSGSGSLDYAQPD-AWASAYSSVAAGAALVAGLGVLAFLRRAGN 561
SQGG SR+S SMS KKK+SE T+RKS +S+SMGL+GERTVKRLRLSKALTIPE+T++ EACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARE+NLEETPVSKVMTRNP FV+SDT AVEALQKMVQGKFRHLPVVE GEVIA+LDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWG + SGPNTFIETLR+R+F+PSLSTI++E+SK+ TV P DTVL A+KKML+ + S A+VTVD KP+GILTSKDILMRVI +LPP+STLVEKVMTPNPECATVDTPIV+ALHTMHDGKFLHLPVL+ DG VV +DV+HITHAAV T +GSTA VNNEAA++MMQKFWDSAM SN DD+ETRSE+SLKL S+ TET RP PY + + FAFKIQD+KGRMHRFTCD R+LT+LIT+I+QRVG+DIDR NLPQI+YEDEDHD V+LASD+DL AAV+HAR AGWKGLKLHLDYSG R+ SGSG LDYA + AWASAYSSVAAGAALVAGLG+LA+LRR+GN
Sbjct: 3 SQGGGSRKSLSMSNSSLHGKKKSSENGGPPDTARKSFQSSKSMGLTGERTVKRLRLSKALTIPESTTISEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIAREMNLEETPVSKVMTRNPTFVLSDTHAVEALQKMVQGKFRHLPVVENGEVIALLDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGTTISGPNTFIETLRDRMFRPSLSTIIAENSKVATVTPTDTVLTATKKMLDLKLSSAVVTVDNKPRGILTSKDILMRVITQNLPPDSTLVEKVMTPNPECATVDTPIVDALHTMHDGKFLHLPVLDRDGNVVAAVDVIHITHAAVIT-----------------------------VGSTAGVNNEAASTMMQKFWDSAMASND-DDEETRSENSLKLASDGTETGRPFPYTLSGLSNTFAFKIQDKKGRMHRFTCDIRSLTDLITSIIQRVGEDIDRHNLPQIMYEDEDHDKVILASDNDLTAAVDHARQAGWKGLKLHLDYSGTQDRQTISGSGDLDYAHAESAWASAYSSVAAGAALVAGLGILAYLRRSGN 542
BLAST of DCAR_007498 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A803QXZ2 ((Uncharacterized protein {ECO:0000313|EnsemblPlants:cds.novel_model_2744_5bd9a17a}))
HSP 1 Score: 812.757 bits (2098), Expect = 0.000e+0
Identity = 420/569 (73.81%), Postives = 474/569 (83.30%), Query Frame = 0
Match: A0A803QXZ2 ((Uncharacterized protein {ECO:0000313|EnsemblPlants:cds.novel_model_2744_5bd9a17a}))
HSP 1 Score: 812.757 bits (2098), Expect = 0.000e+0
Identity = 420/569 (73.81%), Postives = 474/569 (83.30%), Query Frame = 0
Query: 3 GSQGGASRRS-SMS------KKKASET----TTSRKSLTTSRSMGLSGERTVKRLRLSKALTIPETTSVYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARELNLEETPVSKVMTRNPVFVISDTLAVEALQKMVQGKFRHLPVVEKGEVIAILDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGGSTSGPNTFIETLRERIFKPSLSTILSESSKIVTVMPVDTVLMASKKMLECQTSCAIVTVDEKPQGILTSKDILMRVIALDLPPESTLVEKVMTPNPECATVDTPIVEALHTMHDGKFLHLPVLNGDGIVVDVIDVLHITHAAVTTPALTSITDKAQAYLTYEGSRMDILLFTYSMGSTAEVNNEAANSMMQKFWDSAMDSNTVDDDETRSESSLKLLSEATETARPLPYPSTTVPTAFAFKIQDRKGRMHRFTCDTRNLTELITAILQRVGDDIDRSNLPQILYEDEDHDHVVLASDSDLVAAVEHARSAGWKGLKLHLDYSGAPRRRRGSGSGSLDYAQPD-AWASAYSSVAAGAALVAGLGVLAFLRRA 559
SQGG SR+S SMS KKK+SE T+RKS +S+SMGL+GERTVKRLRLSKALTIPE+T++ EACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARE+NLEETPVSKVMTRNP FV+SDT AVEALQKMVQGKFRHLPVVE GEVIA+LDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWG + SGPNTFIETLR+R+F+PSLSTI++E+SK+ TV P DTVL A+KKML+ + S A+VTVD KP+GILTSKDILMRVI +LPP+STLVEKVMTPNPECATVDTPIV+ALHTMHDGKFLHLPVL+ DG VV +DV+HITHAAV T +GSTA VNNEAA++MMQKFWDSAM SN DD+ETRSE+SLKL S+ TET RP PY + + FAFKIQD+KGRMHRFTCD R+LT+LIT+I+QRVG+DIDR NLPQI+YEDEDHD V+LASD+DL AAV+HAR AGWKGLKLHLDYSG R+ SGSG LDYA + AWASAYSSVAAGAALVAGLG+LA+LRR+
Sbjct: 2 ASQGGGSRKSLSMSNSSLHGKKKSSENGGPPDTARKSFQSSKSMGLTGERTVKRLRLSKALTIPESTTISEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIAREMNLEETPVSKVMTRNPTFVLSDTHAVEALQKMVQGKFRHLPVVENGEVIALLDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGTTISGPNTFIETLRDRMFRPSLSTIIAENSKVATVTPTDTVLTATKKMLDLKLSSAVVTVDNKPRGILTSKDILMRVITQNLPPDSTLVEKVMTPNPECATVDTPIVDALHTMHDGKFLHLPVLDRDGNVVAAVDVIHITHAAVIT-----------------------------VGSTAGVNNEAASTMMQKFWDSAMASND-DDEETRSENSLKLASDGTETGRPFPYTLSGLSNTFAFKIQDKKGRMHRFTCDIRSLTDLITSIIQRVGEDIDRHNLPQIMYEDEDHDKVILASDNDLTAAVDHARQAGWKGLKLHLDYSGTQDRQTISGSGDLDYAHAESAWASAYSSVAAGAALVAGLGILAYLRRS 540
BLAST of DCAR_007498 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A803P832 ((Uncharacterized protein {ECO:0000313|EnsemblPlants:cds.evm.model.03.222}))
HSP 1 Score: 811.216 bits (2094), Expect = 0.000e+0
Identity = 422/570 (74.04%), Postives = 476/570 (83.51%), Query Frame = 0
Match: A0A803P832 ((Uncharacterized protein {ECO:0000313|EnsemblPlants:cds.evm.model.03.222}))
HSP 1 Score: 811.216 bits (2094), Expect = 0.000e+0
Identity = 422/570 (74.04%), Postives = 476/570 (83.51%), Query Frame = 0
Query: 4 SQGGASRRS-SMS------KKKASET----TTSRKSLTTSRSMGLSGERTVKRLRLSKALTIPETTSVYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARELNLEETPVSKVMTRNPVFVISDTLAVEALQKMVQGKFRHLPVVEKGEVIAILDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGGSTSGPNTFIETLRERIFKPSLSTILSESSKIVTVMPVDTVLMASKKMLECQTSCAIVTVDEKPQGILTSKDILMRVIALDLPPESTLVEKVMTPNPECATVDTPIVEALHTMHDGKFLHLPVLNGDGIVVDVIDVLHITHAAVTTPALTSITDKAQAYLTYEGSRMDILLFTYSMGSTAEVNNEAANSMMQKFWDSAMDSNTVDDDETRSESSLKLLSEATETARPLPYPSTTVPTAFAFKIQDRKGRMHRFTCDTRNLTELITAILQRVGDDIDRSNLPQILYEDEDHDHVVLASDSDLVAAVEHARSAGWKGLKLHLDYSGAPRRRRGSGSGSLDYAQPD-AWASAYSSVAAGAALVAGLGVLAFLRRAGN 561
SQGG SR+S SMS KKK+SE T+RKS +S+SMGL+GERTVKRLRLSKALTIPE+T++ EACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARE+NLEETPVSKVMTRNP FV+SDT AVEALQKMVQGKFRHLPVVE GEVIA+LDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWG + SGPNTFIETLR+R+F+PSLSTI++E+SK+ TV P DTVL A+KKML+ + S A+VTVD KP+GILTSKDILMRVI +LPP+STLVEKVMTPNPECATVDTPIV+ALHTMHDGKFLHLPVL+ DG VV +DV+HITHAAV T +GSTA VNNEAA++MMQKFWDSAM SN DD+ETRSE+SLKL S+ TET RP PY + + FAFKIQD+KGRMHRFTCD R+LT+LIT+I+QRVG+DIDR NLPQI+YEDEDHD V+LASD+DL AAV+HAR AGWKGLKLHLDYSG R+ SGSG LDYA + AWASAYSSVAAGAALVAGLG+LA+LRR+GN
Sbjct: 704 SQGGGSRKSLSMSNSSLHGKKKSSENGGPPDTARKSFQSSKSMGLTGERTVKRLRLSKALTIPESTTISEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIAREMNLEETPVSKVMTRNPTFVLSDTHAVEALQKMVQGKFRHLPVVENGEVIALLDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGTTISGPNTFIETLRDRMFRPSLSTIIAENSKVATVTPTDTVLTATKKMLDLKLSSAVVTVDNKPRGILTSKDILMRVITQNLPPDSTLVEKVMTPNPECATVDTPIVDALHTMHDGKFLHLPVLDRDGNVVAAVDVIHITHAAVIT-----------------------------VGSTAGVNNEAASTMMQKFWDSAMASND-DDEETRSENSLKLASDGTETGRPFPYTLSGLSNTFAFKIQDKKGRMHRFTCDIRSLTDLITSIIQRVGEDIDRHNLPQIMYEDEDHDKVILASDNDLTAAVDHARQAGWKGLKLHLDYSGTQDRQTISGSGDLDYAHAESAWASAYSSVAAGAALVAGLGILAYLRRSGN 1243
BLAST of DCAR_007498 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2G9HXZ0 ((Uncharacterized protein {ECO:0000313|EMBL:PIN22386.1}))
HSP 1 Score: 806.209 bits (2081), Expect = 0.000e+0
Identity = 419/536 (78.17%), Postives = 465/536 (86.75%), Query Frame = 0
Match: A0A2G9HXZ0 ((Uncharacterized protein {ECO:0000313|EMBL:PIN22386.1}))
HSP 1 Score: 806.209 bits (2081), Expect = 0.000e+0
Identity = 419/536 (78.17%), Postives = 465/536 (86.75%), Query Frame = 0
Query: 26 RKSLTTSRSMGLSGERTVKRLRLSKALTIPETTSVYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARELNLEETPVSKVMTRNPVFVISDTLAVEALQKMVQGKFRHLPVVEKGEVIAILDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGGSTSGPNTFIETLRERIFKPSLSTILSESSKIVTVMPVDTVLMASKKMLECQTSCAIVTVDEKPQGILTSKDILMRVIALDLPPESTLVEKVMTPNPECATVDTPIVEALHTMHDGKFLHLPVLNGDGIVVDVIDVLHITHAAVTTPALTSITDKAQAYLTYEGSRMDILLFTYSMGSTAEVNNEAANSMMQKFWDSAMDSNTVDDDETRSESSLKLLSEATETARPLPYPSTTVPTAFAFKIQDRKGRMHRFTCDTRNLTELITAILQRVGDDIDRSNLPQILYEDEDHDHVVLASDSDLVAAVEHARSAGWKGLKLHLDYSGAPRRRRGSGSGSLDYAQPDAWASAYSSVAAGAALVAGLGVLAFLRRAGN 561
RKS+T SRSMGL+GERTVKRLRLSKALT+PETTS+ EAC RMAARRVDALLLTDSNALLCGILTDKDIATRVIARE+NLEETPVSKVMTRNPVFV+SDTLAVEALQKMVQGKFRHLPVV+ GEVIA+LDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWG S SG NTFIETLRER+F+PSLSTI+SE+SKIVTV P DTVL+A+KKMLE + S A+VTV+ KP+GILTSKD+LMRVIA DLPPESTLVEKVMTPNPECATVDTPIV+ALHTMHDGKFLHLPV++ DGIVV V+DVLHITHAAV T +G+TA VN+EAAN+MMQKFWDSAMD D+DETRSE+S K+ S+ ET R +PYPS++ + FAFKI+DRKGRMHRF C T+NL +LITAILQRVGD+IDR+NLPQILYEDED+D VVLASDSDL AAV+HAR AGWKGL+LHLDYSG P+RRRGS S SLDYAQ DAWASAYS+VAAGAALVAGLGVL FLRR+GN
Sbjct: 46 RKSITVSRSMGLTGERTVKRLRLSKALTVPETTSIIEACHRMAARRVDALLLTDSNALLCGILTDKDIATRVIAREVNLEETPVSKVMTRNPVFVLSDTLAVEALQKMVQGKFRHLPVVDNGEVIALLDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGTSASGHNTFIETLRERMFRPSLSTIISENSKIVTVDPSDTVLVAAKKMLEIRASSAVVTVENKPRGILTSKDMLMRVIAQDLPPESTLVEKVMTPNPECATVDTPIVDALHTMHDGKFLHLPVVDKDGIVVAVVDVLHITHAAVAT-----------------------------VGNTAGVNSEAANTMMQKFWDSAMDLAPDDEDETRSENSSKMQSDGGETGRSIPYPSSSTSSVFAFKIEDRKGRMHRFLCGTQNLADLITAILQRVGDEIDRNNLPQILYEDEDNDKVVLASDSDLQAAVDHARLAGWKGLRLHLDYSGTPKRRRGSNSSSLDYAQKDAWASAYSAVAAGAALVAGLGVLTFLRRSGN 552
BLAST of DCAR_007498 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1Q3C2B2 ((PB1 domain-containing protein/CBS domain-containing protein {ECO:0000313|EMBL:GAV74262.1}))
HSP 1 Score: 805.823 bits (2080), Expect = 0.000e+0
Identity = 424/567 (74.78%), Postives = 479/567 (84.48%), Query Frame = 0
Match: A0A1Q3C2B2 ((PB1 domain-containing protein/CBS domain-containing protein {ECO:0000313|EMBL:GAV74262.1}))
HSP 1 Score: 805.823 bits (2080), Expect = 0.000e+0
Identity = 424/567 (74.78%), Postives = 479/567 (84.48%), Query Frame = 0
Query: 4 SQGGASRRS-----SMSKKKASET---TTSRKSLTTSRSMGLSGERTVKRLRLSKALTIPETTSVYEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIARELNLEETPVSKVMTRNPVFVISDTLAVEALQKMVQGKFRHLPVVEKGEVIAILDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKHWGGSTSGPNTFIETLRERIFKPSLSTILSESSKIVTVMPVDTVLMASKKMLECQTSCAIVTVDEKPQGILTSKDILMRVIALDLPPESTLVEKVMTPNPECATVDTPIVEALHTMHDGKFLHLPVLNGDGIVVDVIDVLHITHAAVTTPALTSITDKAQAYLTYEGSRMDILLFTYSMGSTAEVNNEAANSMMQKFWDSAMD-SNTVDDDETRSESSLKLLSEATETARPLPYPSTTVPTAFAFKIQDRKGRMHRFTCDTRNLTELITAILQRVGDDIDRSNLPQILYEDEDHDHVVLASDSDLVAAVEHARSAGWKGLKLHLDYSGAPRRRRGSGSGSLDYAQPDAWASAYSSVAAGAALVAGLGVLAFLRRAGN 561
SQG +SRRS KKK SE ++RKSLT+SRSMGL+GERTVKRLRLSKALT+PETT++ EACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIA +NLEETPVSKVMTRNP+FV+SDTLAVEALQKMVQGKFRHLPVVE GEVIA+LDIAKCLYDAIARMERAAEKGKAIAAAVEGVEK+WG S SGPNTFIETLRER+F+PSLSTILSE +K++T+ P DTVL A+KKMLE ++S A+VTV+ KP+GILTSKDILMRVIA D+ PESTLVEKVMTPNPECATVDTPIV+ALHTMHDGKFLHLPV++ DG VV VIDV+HITHAAV T +G+T VNNE ++MMQKFWDSAM S D++ET+SE S+KL SE E+AR +PYPS+ +P FAFKIQD++GRMHRFTC+TR+LT++IT+ILQR+GDDIDR+NLPQILYEDEDHD VVLASDSDL AAVEHARSAGWKGL+LHLDYSG RRGSGSG+ DYAQ DAWASAYS+VAAGAALVAGLGVLA+LRRAGN
Sbjct: 3 SQGNSSRRSLSLTNFQGKKKGSENGAPDSARKSLTSSRSMGLTGERTVKRLRLSKALTVPETTTIKEACRRMAARRVDALLLTDSNALLCGILTDKDIATRVIAHAINLEETPVSKVMTRNPIFVLSDTLAVEALQKMVQGKFRHLPVVENGEVIALLDIAKCLYDAIARMERAAEKGKAIAAAVEGVEKNWGTSISGPNTFIETLRERMFRPSLSTILSEKTKVLTLSPTDTVLTAAKKMLEFRSSAAVVTVETKPRGILTSKDILMRVIAQDISPESTLVEKVMTPNPECATVDTPIVDALHTMHDGKFLHLPVVDRDGNVVAVIDVIHITHAAVAT-----------------------------VGNTPGVNNEVGSTMMQKFWDSAMALSPNADEEETQSEGSIKLTSEGIESARSMPYPSSMLPNTFAFKIQDKRGRMHRFTCETRSLTDVITSILQRLGDDIDRNNLPQILYEDEDHDKVVLASDSDLAAAVEHARSAGWKGLRLHLDYSGIRDHRRGSGSGTFDYAQADAWASAYSAVAAGAALVAGLGVLAYLRRAGN 540
| Match Name | Stats | Description |
|---|---|---|
| A0A2R6PS87 | E-Value: 0.000e+0, PID: 76.36 | (CBS domain-containing protein {ECO:0000313|EMBL:P... [more] |
| A0A2Z7CCY4 | E-Value: 0.000e+0, PID: 77.26 | (Uncharacterized protein {ECO:0000313|EMBL:KZV4454... [more] |
| A0A7J0GB18 | E-Value: 0.000e+0, PID: 75.66 | (CBS {ECO:0000313|EMBL:GFZ08006.1})[more] |
| A0A7J6G4U2 | E-Value: 0.000e+0, PID: 74.21 | (Uncharacterized protein {ECO:0000313|EMBL:KAF4377... [more] |
| A0A5J5BK72 | E-Value: 0.000e+0, PID: 76.87 | (Uncharacterized protein {ECO:0000313|EMBL:KAA8542... [more] |
| A0A803QXZ3 | E-Value: 0.000e+0, PID: 74.04 | (Uncharacterized protein {ECO:0000313|EnsemblPlant... [more] |
| A0A803QXZ2 | E-Value: 0.000e+0, PID: 73.81 | (Uncharacterized protein {ECO:0000313|EnsemblPlant... [more] |
| A0A803P832 | E-Value: 0.000e+0, PID: 74.04 | (Uncharacterized protein {ECO:0000313|EnsemblPlant... [more] |
| A0A2G9HXZ0 | E-Value: 0.000e+0, PID: 78.17 | (Uncharacterized protein {ECO:0000313|EMBL:PIN2238... [more] |
| A0A1Q3C2B2 | E-Value: 0.000e+0, PID: 74.78 | (PB1 domain-containing protein/CBS domain-containi... [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. |