Resource Type:
Polypeptide
Name:
DCAR_018580
Identifier:
DCAR_018580.mRNA-protein
Sequence:
MAASTATFKNTATRLSLAMERTNQWVFSQEIPTDLLVEVGGASFNLHKFM
LVAKSNYIRKLIMDKKDGTELERIDLSDIPGGAEIFEKAAKFCYGVNFEI
TVHNVAALRCASEYLQMNDKYCDGNLAGRTEDFLSQVALTSLSGALVVLK
SCENLLPLAEDLNIIKRCVDVATTKACNEANFPSRSPPNWWTEELSILDI
CFFGKVITSMKGRGAKGLTIASAIITYTERSLPDLVRDHSGSNAIKQESS
NIRVQQRELLESIVALLPPDKAVFPISFMCCLLRTAIFLGASNSCKTELE
KRISAILEHVTVDDLLITSYTYDGEKLFDLESVRRIIAGFVDKEKNVAVF
NGGDFKEVCSAATQRVAKTVDAYLGEIAVHSELSISKFNGIANLVPKAAR
KVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYDARLHASQNKR
LPVQIVLHALYYDQLKIRSGVDDRKAPDAISTRNQLQADVSLARENEALR
TELLKMKMYLSDMQKSGSSNSLGTTSAATKGVKKQTKFFSSMSKTLGKLN
PFKHGSKDTSHIDDVGVDLTKPRRRRFSIS*
Sequence Length:
581
Sequence Checksum:
63fc714d453986c6403fb53b4531688b
View location in JBrowse:
Organism:
Relationship:
| Relationships |
|---|
| The polypeptide, DCAR_018580, derives from mRNA, DCAR_018580. |
Blast Results:
The following BLAST results are available for this feature:
BLAST of DCAR_018580 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_018580 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6I9TUB3 ((root phototropism protein 2-like {ECO:0000313|RefSeq:XP_011089543.1}))
HSP 1 Score: 948.347 bits (2450), Expect = 0.000e+0
Identity = 459/571 (80.39%), Postives = 507/571 (88.79%), Query Frame = 0
Match: A0A6I9TUB3 ((root phototropism protein 2-like {ECO:0000313|RefSeq:XP_011089543.1}))
HSP 1 Score: 948.347 bits (2450), Expect = 0.000e+0
Identity = 459/571 (80.39%), Postives = 507/571 (88.79%), Query Frame = 0
Query: 12 ATRLSLAMERTNQWVFSQEIPTDLLVEVGGASFNLHKFMLVAKSNYIRKLIMDKKDGTELERIDLSDIPGGAEIFEKAAKFCYGVNFEITVHNVAALRCASEYLQMNDKYCDGNLAGRTEDFLSQVALTSLSGALVVLKSCENLLPLAEDLNIIKRCVDVATTKACNEANFPSRSPPNWWTEELSILDICFFGKVITSMKGRGAKGLTIASAIITYTERSLPDLVRDHSGSNAIKQES--SNIRVQQRELLESIVALLPPDKAVFPISFMCCLLRTAIFLGASNSCKTELEKRISAILEHVTVDDLLITSYTYDGEKLFDLESVRRIIAGFVDKEKNVAVFNGGDFKEVCSAATQRVAKTVDAYLGEIAVHSELSISKFNGIANLVPKAARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYDARLHASQNKRLPVQIVLHALYYDQLKIRSGVDDRKAPDAISTRNQLQADVSLARENEALRTELLKMKMYLSDMQKSGSSNSLGTTSAATKGVKKQTKFFSSMSKTLGKLNPFKHGSKDTSHIDDVGVDLTKPRRRRFSIS 580
A RLSLAMERT QWVFSQEIPTD++VEVG A+F+LHKFMLVAKSN+IRKLI+D K+ +L RIDLSDIPGG EIFEKAAKFCYGVNFEITVHNVAALRCA+EYLQM DKYCD NLAGRTEDFLSQVALTSLSGALVVLKSCE+LLP+AEDL I++RCV++A+ KAC EANFPSRSPPNWWTEEL+ILDI FF K+I SM+ RGAKGLT+ASAIITYTERSL DLVRDHSG+ +S +++R +QRELLESIVALLP +K+ FPI+F+CCLLRTAIFL A CK ELEKRIS ILEHVTVDDLL+ S+TYDGE+LFDLESVRRII+GFV+KEKNVAVFN GDF+EVCS RVAKTVDAYLGEIA + ELSISKFNGIANLVPK ARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSY+AR+HASQNKRLPVQIVLHALYYDQLK+RSG DD K PDA++TRNQLQAD SL +ENEALRTELLKMKMY+ D+QKS GTTS KG K+ FFSS+SKTLGKLNPFKHGSKDTS+IDD VDLTKPRRRRFSIS
Sbjct: 2 ANRLSLAMERTGQWVFSQEIPTDVIVEVGEANFSLHKFMLVAKSNHIRKLILDSKEA-DLTRIDLSDIPGGPEIFEKAAKFCYGVNFEITVHNVAALRCAAEYLQMTDKYCDNNLAGRTEDFLSQVALTSLSGALVVLKSCEDLLPMAEDLKIVQRCVEIASAKACVEANFPSRSPPNWWTEELTILDITFFAKIIASMRSRGAKGLTLASAIITYTERSLRDLVRDHSGNGTRSTDSMDTDLRARQRELLESIVALLPLEKSAFPINFLCCLLRTAIFLRADTRCKNELEKRISMILEHVTVDDLLVLSFTYDGERLFDLESVRRIISGFVEKEKNVAVFNAGDFREVCSTGMLRVAKTVDAYLGEIATYGELSISKFNGIANLVPKTARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYEARVHASQNKRLPVQIVLHALYYDQLKLRSGADDHKTPDALTTRNQLQADTSLVKENEALRTELLKMKMYIQDIQKSQ-----GTTS---KGSAKKPTFFSSVSKTLGKLNPFKHGSKDTSNIDDGMVDLTKPRRRRFSIS 563
BLAST of DCAR_018580 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6P6ULS6 ((root phototropism protein 2-like {ECO:0000313|RefSeq:XP_027091504.1}))
HSP 1 Score: 942.184 bits (2434), Expect = 0.000e+0
Identity = 451/573 (78.71%), Postives = 510/573 (89.01%), Query Frame = 0
Match: A0A6P6ULS6 ((root phototropism protein 2-like {ECO:0000313|RefSeq:XP_027091504.1}))
HSP 1 Score: 942.184 bits (2434), Expect = 0.000e+0
Identity = 451/573 (78.71%), Postives = 510/573 (89.01%), Query Frame = 0
Query: 10 NTATRLSLAMERTNQWVFSQEIPTDLLVEVGGASFNLHKFMLVAKSNYIRKLIMDKKDGTELERIDLSDIPGGAEIFEKAAKFCYGVNFEITVHNVAALRCASEYLQMNDKYCDGNLAGRTEDFLSQVALTSLSGALVVLKSCENLLPLAEDLNIIKRCVDVATTKACNEANFPSRSPPNWWTEELSILDICFFGKVITSMKGRGAKGLTIASAIITYTERSLPDLVRDHSGSNA--IKQESSNIRVQQRELLESIVALLPPDKAVFPISFMCCLLRTAIFLGASNSCKTELEKRISAILEHVTVDDLLITSYTYDGEKLFDLESVRRIIAGFVDKEKNVAVFNGGDFKEVCSAATQRVAKTVDAYLGEIAVHSELSISKFNGIANLVPKAARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYDARLHASQNKRLPVQIVLHALYYDQLKIRSGVDDRKAPDAISTRNQLQADVSLARENEALRTELLKMKMYLSDMQKSGSSNSLGTTSAATKGVKKQTKFFSSMSKTLGKLNPFKHGSKDTSHIDDVGVDLTKPRRRRFSIS 580
N ++RLSLAMERT QWVFSQEIPTD+LVEVG A+F+LHKFMLVAKSNYIRKLI++ K+ +L RIDLSDIPGG EIFEKAAKFCYGVNFEITVHNVAALRCA+EYLQM DKYCD NLAGRTEDFLSQVAL SLSGA+VVLKSCE+LLPLAEDL I++RCVDV ++KAC EANFPSRSPPNWWTEELSILD+ FFGKVITSMK RGAK T ASA+ITY+E+SL DLVRDHSG+ A + S++R +QRELLESIVALLPP+K+ FPI+F+CCLLR AIFLGA+++CK ELEKRISAILEHVTVDDLL+ S+TYDGE+LFDLESVRRII+GF++KEK+VAVFN GDF+EV S A R AKTVDAYLGEIA SELSISKFNGIA LVPKAARKVDDD+YRA+DIYLKAHPNLDEIEREKVCSVMDPLKLSY+AR+HASQNKRLPVQIVLHALYYDQLK+RSG +D K P+AI+TR QLQAD SLARENE LRTELLKMKMY++D+QK+ G ++ AT ++ FFSSMSKTLGKLNPFKHGSKDTS+IDD VD++KPRRRRFSIS
Sbjct: 20 NNSSRLSLAMERTGQWVFSQEIPTDVLVEVGKATFSLHKFMLVAKSNYIRKLILESKEA-DLTRIDLSDIPGGPEIFEKAAKFCYGVNFEITVHNVAALRCAAEYLQMTDKYCDNNLAGRTEDFLSQVALPSLSGAVVVLKSCEDLLPLAEDLRIVQRCVDVVSSKACVEANFPSRSPPNWWTEELSILDVKFFGKVITSMKSRGAKAFTTASALITYSEKSLRDLVRDHSGNGARTAVSDDSDLRTRQRELLESIVALLPPEKSSFPINFLCCLLRAAIFLGAASTCKIELEKRISAILEHVTVDDLLVVSFTYDGERLFDLESVRRIISGFMEKEKSVAVFNAGDFREVSSTAMLRAAKTVDAYLGEIATFSELSISKFNGIAILVPKAARKVDDDVYRAVDIYLKAHPNLDEIEREKVCSVMDPLKLSYEARVHASQNKRLPVQIVLHALYYDQLKLRSGTEDLKMPNAITTRRQLQADTSLARENEELRTELLKMKMYIADLQKTQ-----GPSTKATAASSRRPTFFSSMSKTLGKLNPFKHGSKDTSNIDDALVDISKPRRRRFSIS 586
BLAST of DCAR_018580 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A068U652 ((Uncharacterized protein {ECO:0000313|EMBL:CDP04035.1}))
HSP 1 Score: 941.028 bits (2431), Expect = 0.000e+0
Identity = 450/573 (78.53%), Postives = 510/573 (89.01%), Query Frame = 0
Match: A0A068U652 ((Uncharacterized protein {ECO:0000313|EMBL:CDP04035.1}))
HSP 1 Score: 941.028 bits (2431), Expect = 0.000e+0
Identity = 450/573 (78.53%), Postives = 510/573 (89.01%), Query Frame = 0
Query: 10 NTATRLSLAMERTNQWVFSQEIPTDLLVEVGGASFNLHKFMLVAKSNYIRKLIMDKKDGTELERIDLSDIPGGAEIFEKAAKFCYGVNFEITVHNVAALRCASEYLQMNDKYCDGNLAGRTEDFLSQVALTSLSGALVVLKSCENLLPLAEDLNIIKRCVDVATTKACNEANFPSRSPPNWWTEELSILDICFFGKVITSMKGRGAKGLTIASAIITYTERSLPDLVRDHSGSNA--IKQESSNIRVQQRELLESIVALLPPDKAVFPISFMCCLLRTAIFLGASNSCKTELEKRISAILEHVTVDDLLITSYTYDGEKLFDLESVRRIIAGFVDKEKNVAVFNGGDFKEVCSAATQRVAKTVDAYLGEIAVHSELSISKFNGIANLVPKAARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYDARLHASQNKRLPVQIVLHALYYDQLKIRSGVDDRKAPDAISTRNQLQADVSLARENEALRTELLKMKMYLSDMQKSGSSNSLGTTSAATKGVKKQTKFFSSMSKTLGKLNPFKHGSKDTSHIDDVGVDLTKPRRRRFSIS 580
N ++RLSLAMERT QWVFSQEIPTD+LVEVG A+F+LHKFMLVAKSN IRKLI++ K+ +L RIDLSDIPGG EIFEKAAKFCYGVNFEITVHNVAALRCA+EYLQM DKYCD NLAGRTEDFLSQVAL SLSGA+VVLKSCE+LLPLAEDL I++RCVDV ++KAC EANFPSRSPPNWWTEELSILD+ FFGKVITSMK RGAK TIASA+ITY+E+SL DLVRDHSG+ A + S++R +QRELLESIVALLPP+K+ FPI+F+CCLLR AIFLGA+++CK ELEKRISAILEHVTVDDLL+ S+TYDGE+LFDLESVRRII+GF++KEK+VAVFN GDF+EV S A R AKTVDAYLGEIA SE SISKFNGIA LVPKAARKVDDD+YRA+DIYLKAHPNLDEIEREKVCSVMDPLKLSY+AR+HASQNKRLPVQIVLHALYYDQLK+RSG +D+K P+AI+TR QLQAD SLARENE LRTELLKMKMY++D+QK+ G ++ AT K+ FFSSMSKTLGKLNPFKHGSKDTS++DD VD++KPRRRRFSIS
Sbjct: 7 NNSSRLSLAMERTGQWVFSQEIPTDVLVEVGKATFSLHKFMLVAKSNCIRKLILESKEA-DLTRIDLSDIPGGPEIFEKAAKFCYGVNFEITVHNVAALRCAAEYLQMTDKYCDNNLAGRTEDFLSQVALPSLSGAVVVLKSCEDLLPLAEDLRIVQRCVDVVSSKACVEANFPSRSPPNWWTEELSILDVKFFGKVITSMKSRGAKAFTIASALITYSEKSLRDLVRDHSGNGARTAVSDDSDLRTRQRELLESIVALLPPEKSSFPINFLCCLLRAAIFLGAASACKIELEKRISAILEHVTVDDLLVVSFTYDGERLFDLESVRRIISGFMEKEKSVAVFNAGDFREVSSTAMLRAAKTVDAYLGEIATFSEFSISKFNGIAILVPKAARKVDDDVYRAVDIYLKAHPNLDEIEREKVCSVMDPLKLSYEARVHASQNKRLPVQIVLHALYYDQLKLRSGTEDQKMPNAITTRRQLQADTSLARENEELRTELLKMKMYIADLQKTQ-----GPSTKATAASSKRPTFFSSMSKTLGKLNPFKHGSKDTSNLDDALVDISKPRRRRFSIS 573
BLAST of DCAR_018580 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6P6WB22 ((root phototropism protein 2-like {ECO:0000313|RefSeq:XP_027112663.1}))
HSP 1 Score: 939.873 bits (2428), Expect = 0.000e+0
Identity = 450/573 (78.53%), Postives = 511/573 (89.18%), Query Frame = 0
Match: A0A6P6WB22 ((root phototropism protein 2-like {ECO:0000313|RefSeq:XP_027112663.1}))
HSP 1 Score: 939.873 bits (2428), Expect = 0.000e+0
Identity = 450/573 (78.53%), Postives = 511/573 (89.18%), Query Frame = 0
Query: 10 NTATRLSLAMERTNQWVFSQEIPTDLLVEVGGASFNLHKFMLVAKSNYIRKLIMDKKDGTELERIDLSDIPGGAEIFEKAAKFCYGVNFEITVHNVAALRCASEYLQMNDKYCDGNLAGRTEDFLSQVALTSLSGALVVLKSCENLLPLAEDLNIIKRCVDVATTKACNEANFPSRSPPNWWTEELSILDICFFGKVITSMKGRGAKGLTIASAIITYTERSLPDLVRDHSGSNA--IKQESSNIRVQQRELLESIVALLPPDKAVFPISFMCCLLRTAIFLGASNSCKTELEKRISAILEHVTVDDLLITSYTYDGEKLFDLESVRRIIAGFVDKEKNVAVFNGGDFKEVCSAATQRVAKTVDAYLGEIAVHSELSISKFNGIANLVPKAARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYDARLHASQNKRLPVQIVLHALYYDQLKIRSGVDDRKAPDAISTRNQLQADVSLARENEALRTELLKMKMYLSDMQKSGSSNSLGTTSAATKGVKKQTKFFSSMSKTLGKLNPFKHGSKDTSHIDDVGVDLTKPRRRRFSIS 580
N ++RLSLAMERT QWVFSQEIPTD+LVEVG A+F+LHKFMLVAKSN IRKLI++ K+ +L RIDLSDIPGG EIFEKAAKFCYGVNFEITVHNVAALRCA+EYLQM DKYCD NLAGRTEDFLSQVAL SLSGA+VVLKSCE+LLPLAEDL I++RCVDV ++KAC EANFPSRSPPNWWTEELSILD+ FFGKVITSMK RGAK TIASA+ITY+E+SL DLVRDHSG+ A + S++R +QRELLESIVALLPP+K+ FPI+F+CCLLR AIFLGA+++CK ELEKRISAILEHVTVDDLL+ S+TYDGE+LFDLESVRRII+GF++KEK+VAVFN GDF+EV S A R AKTVDAYLGEIA SELSISKFNGIA LVPKAARKVDDD+YRA+DIYLKAHPNLDEIEREKVCSVMDPLKLSY+AR+HASQNKRLPVQIVLHALYYDQLK+RSG +D+K P+AI+TR QLQAD SLARENE LRTELLKMKMY++D+QK+ G ++ AT ++ FFSSMSKTLGKLNPFKHGSKDTS++DD VD++KPRRRRFSIS
Sbjct: 20 NNSSRLSLAMERTGQWVFSQEIPTDVLVEVGKATFSLHKFMLVAKSNCIRKLILESKEA-DLTRIDLSDIPGGPEIFEKAAKFCYGVNFEITVHNVAALRCAAEYLQMTDKYCDNNLAGRTEDFLSQVALPSLSGAVVVLKSCEDLLPLAEDLRIVQRCVDVVSSKACVEANFPSRSPPNWWTEELSILDVKFFGKVITSMKSRGAKAFTIASALITYSEKSLRDLVRDHSGNGARTAVSDDSDLRTRQRELLESIVALLPPEKSSFPINFLCCLLRAAIFLGAASACKIELEKRISAILEHVTVDDLLVVSFTYDGERLFDLESVRRIISGFMEKEKSVAVFNAGDFREVSSTAMLRAAKTVDAYLGEIATFSELSISKFNGIAILVPKAARKVDDDVYRAVDIYLKAHPNLDEIEREKVCSVMDPLKLSYEARVHASQNKRLPVQIVLHALYYDQLKLRSGTEDQKMPNAITTRRQLQADTSLARENEELRTELLKMKMYIADLQKTQ-----GPSTKATAASSRRPTFFSSMSKTLGKLNPFKHGSKDTSNLDDALVDISKPRRRRFSIS 586
BLAST of DCAR_018580 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2G2XB76 ((Root phototropism protein 2 {ECO:0000313|EMBL:PHT54756.1}))
HSP 1 Score: 933.324 bits (2411), Expect = 0.000e+0
Identity = 453/580 (78.10%), Postives = 512/580 (88.28%), Query Frame = 0
Match: A0A2G2XB76 ((Root phototropism protein 2 {ECO:0000313|EMBL:PHT54756.1}))
HSP 1 Score: 933.324 bits (2411), Expect = 0.000e+0
Identity = 453/580 (78.10%), Postives = 512/580 (88.28%), Query Frame = 0
Query: 6 ATFKNTATRLSLAMERTNQWVFSQEIPTDLLVEVGGASFNLHKFMLVAKSNYIRKLIMDKKDGTELERIDLSDIPGGAEIFEKAAKFCYGVNFEITVHNVAALRCASEYLQMNDKYCDGNLAGRTEDFLSQVALTSLSGALVVLKSCENLLPLAEDLNIIKRCVDVATTKACNEANFPSRSPPNWWTEELSILDICFFGKVITSMKGRGAKGLTIASAIITYTERSLPDLVRDHSGSNA--IKQESSNIRVQQRELLESIVALLPPDKAVFPISFMCCLLRTAIFLGASNSCKTELEKRISAILEHVTVDDLLITSYTYDGEKLFDLESVRRIIAGFVDKEKNVAVFNGGDFKEVCSAATQRVAKTVDAYLGEIAVHSELSISKFNGIANLVPKAARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYDARLHASQNKRLPVQIVLHALYYDQLKIRSGVDD---RKAPDAISTRNQLQADVSLARENEALRTELLKMKMYLSDMQKSGSSNSLGTTSAATKGVKKQTKFFSSMSKTLGKLNPFKHGSKDTSHIDDVGVDLTKPRRRRFSIS 580
A KNT +RLSLAMERT QWVFSQEIPTD++VEVG A+FNLHKFMLVAKSN+IRKLI++ K+ +++ RI LSDIPGG E+FEKAAKFCYGVNFEITVHNVAALRCA+EYLQM DKYCD NLA RTEDFLSQVALTSLSGALVVLKSCENLLPLA DLNI++RCVD+A+ KAC EANFPSRSPPNWWTEEL+ILD+ FF ++I +MKGRGAK LTIASAIITYTERSL DLVRDHSG+ I+ E S+IR+ QRELLESIVALLP +KA FPI+F+CCLLRTAIFL A+NSCKTELEKRIS ILEHVTVDDLL+ S+TYDGE+LFDLESVRRI++GF++KEK+VAVFNGGDF EVCS QRVAKTVDAYLGEIA +LSISKFNGIA LVPK ARK DDDLYRA+DIYLKAHP+LDEIEREKVCSVMDPLKLSY+AR+HASQNKRLPVQIVLHALY+DQLKIRS DD P AI+TRNQL+ADVSL +ENE LRTELLKMKMY++D+QK+ ++ ++A KG ++T FFSSMSKTLGKLNPFKHGSKDT +IDD VD+TKPRRRRFSIS
Sbjct: 3 APIKNT-SRLSLAMERTGQWVFSQEIPTDVIVEVGEANFNLHKFMLVAKSNHIRKLILETKE-SDVTRIILSDIPGGPEMFEKAAKFCYGVNFEITVHNVAALRCAAEYLQMTDKYCDNNLASRTEDFLSQVALTSLSGALVVLKSCENLLPLAHDLNILQRCVDIASAKACVEANFPSRSPPNWWTEELTILDVSFFERIIVAMKGRGAKALTIASAIITYTERSLRDLVRDHSGNGTRLIEPEDSDIRMHQRELLESIVALLPVEKAAFPINFLCCLLRTAIFLRAANSCKTELEKRISIILEHVTVDDLLVLSFTYDGERLFDLESVRRIVSGFMEKEKSVAVFNGGDFGEVCSTGMQRVAKTVDAYLGEIATFGDLSISKFNGIAILVPKGARKADDDLYRAVDIYLKAHPHLDEIEREKVCSVMDPLKLSYEARVHASQNKRLPVQIVLHALYFDQLKIRSSADDTHNNNMPGAIATRNQLEADVSLVKENEVLRTELLKMKMYIADIQKT----TVTQGTSANKGSLRKTTFFSSMSKTLGKLNPFKHGSKDTFNIDDGAVDITKPRRRRFSIS 576
BLAST of DCAR_018580 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1U8FGG4 ((root phototropism protein 2 {ECO:0000313|RefSeq:XP_016557805.1}))
HSP 1 Score: 931.784 bits (2407), Expect = 0.000e+0
Identity = 452/580 (77.93%), Postives = 511/580 (88.10%), Query Frame = 0
Match: A0A1U8FGG4 ((root phototropism protein 2 {ECO:0000313|RefSeq:XP_016557805.1}))
HSP 1 Score: 931.784 bits (2407), Expect = 0.000e+0
Identity = 452/580 (77.93%), Postives = 511/580 (88.10%), Query Frame = 0
Query: 6 ATFKNTATRLSLAMERTNQWVFSQEIPTDLLVEVGGASFNLHKFMLVAKSNYIRKLIMDKKDGTELERIDLSDIPGGAEIFEKAAKFCYGVNFEITVHNVAALRCASEYLQMNDKYCDGNLAGRTEDFLSQVALTSLSGALVVLKSCENLLPLAEDLNIIKRCVDVATTKACNEANFPSRSPPNWWTEELSILDICFFGKVITSMKGRGAKGLTIASAIITYTERSLPDLVRDHSGSNA--IKQESSNIRVQQRELLESIVALLPPDKAVFPISFMCCLLRTAIFLGASNSCKTELEKRISAILEHVTVDDLLITSYTYDGEKLFDLESVRRIIAGFVDKEKNVAVFNGGDFKEVCSAATQRVAKTVDAYLGEIAVHSELSISKFNGIANLVPKAARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYDARLHASQNKRLPVQIVLHALYYDQLKIRSGVDD---RKAPDAISTRNQLQADVSLARENEALRTELLKMKMYLSDMQKSGSSNSLGTTSAATKGVKKQTKFFSSMSKTLGKLNPFKHGSKDTSHIDDVGVDLTKPRRRRFSIS 580
A KNT +RLSLAMERT QWVFSQEIPTD++VEVG A+FNLHKFMLVAKSN+IRKLI++ K+ +++ RI LSDIPGG E+FEKAAKFCYGVNFEITVHNVAALRC +EYLQM DKYCD NLA RTEDFLSQVALTSLSGALVVLKSCENLLPLA DLNI++RCVD+A+ KAC EANFPSRSPPNWWTEEL+ILD+ FF ++I +MKGRGAK LTIASAIITYTERSL DLVRDHSG+ I+ E S+IR+ QRELLESIVALLP +KA FPI+F+CCLLRTAIFL A+NSCKTELEKRIS ILEHVTVDDLL+ S+TYDGE+LFDLESVRRI++GF++KEK+VAVFNGGDF EVCS QRVAKTVDAYLGEIA +LSISKFNGIA LVPK ARK DDDLYRA+DIYLKAHP+LDEIEREKVCSVMDPLKLSY+AR+HASQNKRLPVQIVLHALY+DQLKIRS DD P AI+TRNQL+ADVSL +ENE LRTELLKMKMY++D+QK+ ++ ++A KG ++T FFSSMSKTLGKLNPFKHGSKDT +IDD VD+TKPRRRRFSIS
Sbjct: 3 APIKNT-SRLSLAMERTGQWVFSQEIPTDVIVEVGEANFNLHKFMLVAKSNHIRKLILETKE-SDVTRIILSDIPGGPEMFEKAAKFCYGVNFEITVHNVAALRCVAEYLQMTDKYCDNNLASRTEDFLSQVALTSLSGALVVLKSCENLLPLAHDLNILQRCVDIASAKACVEANFPSRSPPNWWTEELTILDVSFFERIIVAMKGRGAKALTIASAIITYTERSLRDLVRDHSGNGTRLIEPEDSDIRMHQRELLESIVALLPVEKAAFPINFLCCLLRTAIFLRAANSCKTELEKRISIILEHVTVDDLLVLSFTYDGERLFDLESVRRIVSGFMEKEKSVAVFNGGDFGEVCSTGMQRVAKTVDAYLGEIATFGDLSISKFNGIAILVPKGARKADDDLYRAVDIYLKAHPHLDEIEREKVCSVMDPLKLSYEARVHASQNKRLPVQIVLHALYFDQLKIRSSADDTHNNNMPGAIATRNQLEADVSLVKENEVLRTELLKMKMYIADIQKT----TVTQGTSANKGSLRKTTFFSSMSKTLGKLNPFKHGSKDTFNIDDGAVDITKPRRRRFSIS 576
BLAST of DCAR_018580 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6P3ZB24 ((root phototropism protein 2 {ECO:0000313|RefSeq:XP_015874685.1}))
HSP 1 Score: 931.398 bits (2406), Expect = 0.000e+0
Identity = 444/582 (76.29%), Postives = 518/582 (89.00%), Query Frame = 0
Match: A0A6P3ZB24 ((root phototropism protein 2 {ECO:0000313|RefSeq:XP_015874685.1}))
HSP 1 Score: 931.398 bits (2406), Expect = 0.000e+0
Identity = 444/582 (76.29%), Postives = 518/582 (89.00%), Query Frame = 0
Query: 1 MAASTATFKNTATRLSLAMERTNQWVFSQEIPTDLLVEVGGASFNLHKFMLVAKSNYIRKLIMDKKDGTELERIDLSDIPGGAEIFEKAAKFCYGVNFEITVHNVAALRCASEYLQMNDKYCDGNLAGRTEDFLSQVALTSLSGALVVLKSCENLLPLAEDLNIIKRCVDVATTKACNEANFPSRSPPNWWTEELSILDICFFGKVITSMKGRGAKGLTIASAIITYTERSLPDLVRDHSGSNAIKQE--SSNIRVQQRELLESIVALLPPDKAVFPISFMCCLLRTAIFLGASNSCKTELEKRISAILEHVTVDDLLITSYTYDGEKLFDLESVRRIIAGFVDKEKNVAVFNGGDFKEVCSAATQRVAKTVDAYLGEIAVHSELSISKFNGIANLVPKAARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYDARLHASQNKRLPVQIVLHALYYDQLKIRSGVDDRKAPDAISTRNQLQADVSLARENEALRTELLKMKMYLSDMQKSGSSNSLGTTSAATKGVKKQTKFFSSMSKTLGKLNPFKHGSKDTSHIDDVGVDLTKPRRRRFSIS 580
MA+S+ N RLS+AMERT QWVFSQEIPTD+L+EVG A+F+LHKFMLVAKSN+IRKLI++ K+ +L RIDLS IPGG EIFEKAAKFCYGVNFEITVHNVAALRCA+EYLQM DKYCD NLAGRTEDFLSQVAL+SLSGA+VVLKSCE+LLP+AEDL I++RCV+VA++KACNEANFPSRSPPNWWTEELSILDI FG++I+ M+ RGAK L +ASA+I+Y ERSL DLVRDHSG+ A + S++R++Q+E+LESIVALLP +KA FPI+F+CCLLR+AIFL AS++CK ELEKRIS ILEHVTVDDLL+ S+TYDGE+LFDL+SVRRI+AGFV+KEKN+AVFN GDF+EVCS A RVAKTVDAYLGEIA ++ELSISKFNGIANLVPK ARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMD LKLSY+AR+HASQNKRLPVQIVLHALYYDQLK+RSGV+DR +A++T++QLQ DVSL RENEALR+EL++MK+Y+SD+QKS G T ++K V K+ +FFSSMSKTLGKLNPFKHGSKDTS+IDD GVD+TKPRRRRFSIS
Sbjct: 1 MASSSVM--NNHNRLSIAMERTGQWVFSQEIPTDVLIEVGEANFSLHKFMLVAKSNHIRKLIVESKE-PDLTRIDLSGIPGGPEIFEKAAKFCYGVNFEITVHNVAALRCAAEYLQMTDKYCDNNLAGRTEDFLSQVALSSLSGAIVVLKSCEDLLPMAEDLKIVQRCVEVASSKACNEANFPSRSPPNWWTEELSILDIEVFGRIISGMRKRGAKALIVASALISYAERSLRDLVRDHSGNGANSSDLVESDVRIRQKEILESIVALLPSEKAAFPINFLCCLLRSAIFLKASDNCKNELEKRISIILEHVTVDDLLVLSFTYDGERLFDLDSVRRILAGFVEKEKNMAVFNAGDFREVCSTAMHRVAKTVDAYLGEIATYTELSISKFNGIANLVPKGARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDALKLSYEARVHASQNKRLPVQIVLHALYYDQLKLRSGVEDRNMQEAVTTKSQLQTDVSLVRENEALRSELVRMKLYISDLQKSAPG---GITGTSSKSVPKKPRFFSSMSKTLGKLNPFKHGSKDTSNIDD-GVDITKPRRRRFSIS 575
BLAST of DCAR_018580 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2G3A4M7 ((Root phototropism protein 2 {ECO:0000313|EMBL:PHT89141.1}))
HSP 1 Score: 929.858 bits (2402), Expect = 0.000e+0
Identity = 448/575 (77.91%), Postives = 508/575 (88.35%), Query Frame = 0
Match: A0A2G3A4M7 ((Root phototropism protein 2 {ECO:0000313|EMBL:PHT89141.1}))
HSP 1 Score: 929.858 bits (2402), Expect = 0.000e+0
Identity = 448/575 (77.91%), Postives = 508/575 (88.35%), Query Frame = 0
Query: 11 TATRLSLAMERTNQWVFSQEIPTDLLVEVGGASFNLHKFMLVAKSNYIRKLIMDKKDGTELERIDLSDIPGGAEIFEKAAKFCYGVNFEITVHNVAALRCASEYLQMNDKYCDGNLAGRTEDFLSQVALTSLSGALVVLKSCENLLPLAEDLNIIKRCVDVATTKACNEANFPSRSPPNWWTEELSILDICFFGKVITSMKGRGAKGLTIASAIITYTERSLPDLVRDHSGSNA--IKQESSNIRVQQRELLESIVALLPPDKAVFPISFMCCLLRTAIFLGASNSCKTELEKRISAILEHVTVDDLLITSYTYDGEKLFDLESVRRIIAGFVDKEKNVAVFNGGDFKEVCSAATQRVAKTVDAYLGEIAVHSELSISKFNGIANLVPKAARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYDARLHASQNKRLPVQIVLHALYYDQLKIRSGVDD---RKAPDAISTRNQLQADVSLARENEALRTELLKMKMYLSDMQKSGSSNSLGTTSAATKGVKKQTKFFSSMSKTLGKLNPFKHGSKDTSHIDDVGVDLTKPRRRRFSIS 580
+ +RLSLAMERT QWVFSQEIPTD++VEVG A+FNLHKFMLVAKSN+IRKLI++ K+ +++ RI LSDIPGG E+FEKAAKFCYGVNFEITVHNVAALRC +EYLQM DKYCD NLA RTEDFLSQVALTSLSGALVVLKSCENLLPLA DLNI++RCVD+A+ KAC EANFPSRSPPNWWTEEL+ILD+ FF ++I +MKGRGAK LTIASAIITYTERSL DLVRDHSG+ I+ E S+IR+ QRELLESIVALLP +KA FPI+F+CCLLRTAIFL A+NSCKTELEKRIS ILEHVTVDDLL+ S+TYDGE+LFDLESVRRI++GF++KEK+VAVFNGGDF EVCS QRVAKTVDAYLGEIA +LSISKFNGIA LVPK ARK DDDLYRA+DIYLKAHP+LDEIEREKVCSVMDPLKLSY+AR+HASQNKRLPVQIVLHALY+DQLKIRS DD P AI+TRNQL+ADVSL +ENE LRTELLKMKMY++D+QK+ ++ ++A KG ++T FFSSMSKTLGKLNPFKHGSKDT +IDD VD+TKPRRRRFSIS
Sbjct: 7 STSRLSLAMERTGQWVFSQEIPTDVIVEVGEANFNLHKFMLVAKSNHIRKLILETKE-SDVTRIILSDIPGGPEMFEKAAKFCYGVNFEITVHNVAALRCVAEYLQMTDKYCDNNLASRTEDFLSQVALTSLSGALVVLKSCENLLPLAHDLNILQRCVDIASAKACVEANFPSRSPPNWWTEELTILDVSFFERIIVAMKGRGAKALTIASAIITYTERSLRDLVRDHSGNGTRLIEPEDSDIRMHQRELLESIVALLPVEKAAFPINFLCCLLRTAIFLRAANSCKTELEKRISIILEHVTVDDLLVLSFTYDGERLFDLESVRRIVSGFMEKEKSVAVFNGGDFGEVCSTGMQRVAKTVDAYLGEIATFGDLSISKFNGIAILVPKGARKADDDLYRAVDIYLKAHPHLDEIEREKVCSVMDPLKLSYEARVHASQNKRLPVQIVLHALYFDQLKIRSSADDTHNNNMPGAIATRNQLEADVSLVKENEVLRTELLKMKMYIADIQKT----TVTQGTSANKGSLRKTTFFSSMSKTLGKLNPFKHGSKDTFNIDDGAVDITKPRRRRFSIS 576
BLAST of DCAR_018580 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5C5I3 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8550459.1}))
HSP 1 Score: 929.472 bits (2401), Expect = 0.000e+0
Identity = 446/577 (77.30%), Postives = 509/577 (88.21%), Query Frame = 0
Match: A0A5J5C5I3 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8550459.1}))
HSP 1 Score: 929.472 bits (2401), Expect = 0.000e+0
Identity = 446/577 (77.30%), Postives = 509/577 (88.21%), Query Frame = 0
Query: 6 ATFKNTATRLSLAMERTNQWVFSQEIPTDLLVEVGGASFNLHKFMLVAKSNYIRKLIMDKKDGTELERIDLSDIPGGAEIFEKAAKFCYGVNFEITVHNVAALRCASEYLQMNDKYCDGNLAGRTEDFLSQVALTSLSGALVVLKSCENLLPLAEDLNIIKRCVDVATTKACNEANFPSRSPPNWWTEELSILDICFFGKVITSMKGRGAKGLTIASAIITYTERSLPDLVRDHSGSNAIKQE--SSNIRVQQRELLESIVALLPPDKAVFPISFMCCLLRTAIFLGASNSCKTELEKRISAILEHVTVDDLLITSYTYDGEKLFDLESVRRIIAGFVDKEKNVAVFNGGDFKEVCSAATQRVAKTVDAYLGEIAVHSELSISKFNGIANLVPKAARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYDARLHASQNKRLPVQIVLHALYYDQLKIRSGVDDRKAPDAISTRNQLQADVSLARENEALRTELLKMKMYLSDMQKSGSSNSLGTTSAATKGVKKQTKFFSSMSKTLGKLNPFKHGSKDTSHIDDVGVDLTKPRRRRFSIS 580
A+ K+T +RLS+AMERT QWVFSQE P D++VEVG A+F+LHKFMLVAKSNYIRKLI++ K+ +L RIDLS+IPGGA+IFEKAA+FCYGVNFEITVHNVA LR A+EYL+M D YCD NLAGRTEDFLSQVALTSLSGA+VVLKSCE+LLP+AEDL I++RCVDVA++KACNEAN+PSRSPPNWWTEELSILDI F K+I +MK RGAK T+ASAIITY ERSL DLVRDHSG+ + S +R++QRELLESIVALLP ++A FPI F+CCLLRTAI+L A+N CK ELEKR+S ILEHVTVDDLL+ S+TYDGE+LFDLESVRRII+GFV+KEK+VAVFNGGDF+EVCS A QRVAKTVDAYLGEIA ELSISKFNGIANLVPK ARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSY+AR+HASQNKRLPVQ+VLHALYYDQLK+RSG DDR DA++TRNQLQ DVSLA+ENEALR+EL+KMKMY+SD+QK+ GT+ TKG ++ FFSSMSKTLGKLNPFKHGSKDTS+IDD VD+TKPRRRRFSIS
Sbjct: 3 ASIKSTNSRLSMAMERTGQWVFSQEFPADVVVEVGKATFSLHKFMLVAKSNYIRKLILESKE-PDLTRIDLSEIPGGADIFEKAARFCYGVNFEITVHNVATLRSAAEYLEMTDTYCDNNLAGRTEDFLSQVALTSLSGAVVVLKSCEDLLPMAEDLKIVQRCVDVASSKACNEANYPSRSPPNWWTEELSILDIAFLEKIIAAMKSRGAKAFTVASAIITYAERSLRDLVRDHSGNGKKLSDPGDSEVRIRQRELLESIVALLPAERAAFPIKFLCCLLRTAIYLTAANRCKNELEKRVSVILEHVTVDDLLVLSFTYDGERLFDLESVRRIISGFVEKEKSVAVFNGGDFREVCSTAMQRVAKTVDAYLGEIATCGELSISKFNGIANLVPKGARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYEARVHASQNKRLPVQMVLHALYYDQLKLRSGTDDRNMQDAVTTRNQLQVDVSLAKENEALRSELIKMKMYISDIQKNQ-----GTS---TKGGSRKPTFFSSMSKTLGKLNPFKHGSKDTSNIDDC-VDITKPRRRRFSIS 569
BLAST of DCAR_018580 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B6YKL0 ((Putative root phototropism protein 2-like {ECO:0000313|EMBL:MPA32258.1}))
HSP 1 Score: 928.317 bits (2398), Expect = 0.000e+0
Identity = 448/576 (77.78%), Postives = 507/576 (88.02%), Query Frame = 0
Match: A0A5B6YKL0 ((Putative root phototropism protein 2-like {ECO:0000313|EMBL:MPA32258.1}))
HSP 1 Score: 928.317 bits (2398), Expect = 0.000e+0
Identity = 448/576 (77.78%), Postives = 507/576 (88.02%), Query Frame = 0
Query: 7 TFKNTATRLSLAMERTNQWVFSQEIPTDLLVEVGGASFNLHKFMLVAKSNYIRKLIMDKKDGTELERIDLSDIPGGAEIFEKAAKFCYGVNFEITVHNVAALRCASEYLQMNDKYCDGNLAGRTEDFLSQVALTSLSGALVVLKSCENLLPLAEDLNIIKRCVDVATTKACNEANFPSRSPPNWWTEELSILDICFFGKVITSMKGRGAKGLTIASAIITYTERSLPDLVRDHSGSNAIKQE--SSNIRVQQRELLESIVALLPPDKAVFPISFMCCLLRTAIFLGASNSCKTELEKRISAILEHVTVDDLLITSYTYDGEKLFDLESVRRIIAGFVDKEKNVAVFNGGDFKEVCSAATQRVAKTVDAYLGEIAVHSELSISKFNGIANLVPKAARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVMDPLKLSYDARLHASQNKRLPVQIVLHALYYDQLKIRSGVDDRKAPDAISTRNQLQADVSLARENEALRTELLKMKMYLSDMQKSGSSNSLGTTSAATKGVKKQTKFFSSMSKTLGKLNPFKHGSKDTSHIDDVGVDLTKPRRRRFSIS 580
+ K+ +RLS+AMERT QWVFSQE P D++VEVG A+F+LHKFMLVAKSNYIRKLI++ K+ +L RIDLSDIPGG EIFEKAAKFCYGVNFEITVHNVA LRCA+EYL+M D Y D NLAGRTEDFLSQVALTSLSGA+VVLKSCE+LLP AEDL I+ RCVD+A++KACNEAN+PSRSPPNWWTEELSILDI FF K++ +MK RGAK TIASAIITY ERSL DLVRDHSG+ + S +R++Q+ELLESIVALLP ++A FPI+F+CCLLRTAIFL ASN CK ELEKRIS ILEHVTVDDLL+ S+TYDGE+LFDLESVRRII+GF +KEK+VAVFNGGDFKEVCS A RVAKTVDAYLGEIA ++ELSISKFNGIANLVPK ARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSV+DPLKLSY+AR+HASQNKRLPVQIVLHALYYDQLK+RSG DDR DAISTR+QLQADVSL +ENEALR+EL+KMKMY+SD+QK+ GT+ TKG ++ FFSSMSKTLGKLNPFK+GSKDTS+IDD GVD+TKPRRRRFSIS
Sbjct: 4 SIKSNNSRLSMAMERTGQWVFSQEFPADVVVEVGEATFSLHKFMLVAKSNYIRKLILETKE-PDLTRIDLSDIPGGPEIFEKAAKFCYGVNFEITVHNVATLRCAAEYLEMTDNYSDNNLAGRTEDFLSQVALTSLSGAVVVLKSCEDLLPRAEDLKIVHRCVDIASSKACNEANYPSRSPPNWWTEELSILDIAFFEKIVVAMKSRGAKAFTIASAIITYAERSLRDLVRDHSGNGKKSSDLGDSGVRIRQQELLESIVALLPSERAAFPINFLCCLLRTAIFLTASNRCKNELEKRISVILEHVTVDDLLVVSFTYDGERLFDLESVRRIISGFAEKEKSVAVFNGGDFKEVCSTAMLRVAKTVDAYLGEIATYTELSISKFNGIANLVPKGARKVDDDLYRAIDIYLKAHPNLDEIEREKVCSVLDPLKLSYEARVHASQNKRLPVQIVLHALYYDQLKLRSGTDDRCVQDAISTRSQLQADVSLVKENEALRSELMKMKMYISDIQKNQ-----GTS---TKGAPRKPTFFSSMSKTLGKLNPFKNGSKDTSNIDD-GVDITKPRRRRFSIS 569
| Match Name | Stats | Description |
|---|---|---|
| A0A6I9TUB3 | E-Value: 0.000e+0, PID: 80.39 | (root phototropism protein 2-like {ECO:0000313|Ref... [more] |
| A0A6P6ULS6 | E-Value: 0.000e+0, PID: 78.71 | (root phototropism protein 2-like {ECO:0000313|Ref... [more] |
| A0A068U652 | E-Value: 0.000e+0, PID: 78.53 | (Uncharacterized protein {ECO:0000313|EMBL:CDP0403... [more] |
| A0A6P6WB22 | E-Value: 0.000e+0, PID: 78.53 | (root phototropism protein 2-like {ECO:0000313|Ref... [more] |
| A0A2G2XB76 | E-Value: 0.000e+0, PID: 78.10 | (Root phototropism protein 2 {ECO:0000313|EMBL:PHT... [more] |
| A0A1U8FGG4 | E-Value: 0.000e+0, PID: 77.93 | (root phototropism protein 2 {ECO:0000313|RefSeq:X... [more] |
| A0A6P3ZB24 | E-Value: 0.000e+0, PID: 76.29 | (root phototropism protein 2 {ECO:0000313|RefSeq:X... [more] |
| A0A2G3A4M7 | E-Value: 0.000e+0, PID: 77.91 | (Root phototropism protein 2 {ECO:0000313|EMBL:PHT... [more] |
| A0A5J5C5I3 | E-Value: 0.000e+0, PID: 77.30 | (Uncharacterized protein {ECO:0000313|EMBL:KAA8550... [more] |
| A0A5B6YKL0 | E-Value: 0.000e+0, PID: 77.78 | (Putative root phototropism protein 2-like {ECO:00... [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. |