Resource Type:
Polypeptide
Name:
DCAR_001121
Identifier:
DCAR_001121.mRNA-protein
Sequence:
MSLVGSSSSSYGNRKHYSLTGSKKKSGLSASMDSSNKPKILYGTGSDSTE
SYDPSYILDSPSSEVVQLVAAQQISDSPDAANINSHSSLSKYQSDDLEGQ
FTEAMDFDDSRMRLKLQELERELLDENDEDDSILGPNESMEIESGWADAV
PNALIHDSPKESSSIDSNISSISSSKEVSLLPDDNPKQLLFYCAVTISNG
NVENASTMIDELRQRVSIQGEPSERIAAYMVEALAARMATSGKGLYKALK
CKEAPSLDRLSAMQVLFEVCPCFRFGFMAANGAIIEALENERKVHIVDFD
INQGSQYITLLQTLANYHGKLPLLRLTGVDDPESLQRATGSLKLIGQRLE
QLAQALEVPFEFQAVVANTEEVTPAILDHHPDEALVVNFAFQLHHMPDES
VSTVNQRDKLLRMVKSMNPKLVTVVEQDVNTNTAPFLPRFAEAYNFYYAI
FDSLDATLPRDSQDRMNVEKQCLARDIVNVVACEGEERIERYEVAGKWRA
RMMMAGFEACPIGPDVNVSIRELIKRYSDRFKVKEEINALHFGWQDKILI
VASAWK*
Sequence Length:
557
Sequence Checksum:
289fc8e93870c82eeeeeceaee469faf2
View location in JBrowse:
Organism:
Relationship:
| Relationships |
|---|
| The polypeptide, DCAR_001121, derives from mRNA, DCAR_001121. |
Blast Results:
The following BLAST results are available for this feature:
BLAST of DCAR_001121 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_001121 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5BWN6 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8546500.1}))
HSP 1 Score: 771.926 bits (1992), Expect = 0.000e+0
Identity = 396/578 (68.51%), Postives = 463/578 (80.10%), Query Frame = 0
Match: A0A5J5BWN6 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8546500.1}))
HSP 1 Score: 771.926 bits (1992), Expect = 0.000e+0
Identity = 396/578 (68.51%), Postives = 463/578 (80.10%), Query Frame = 0
Query: 1 MSLVGS---SSSSYGNRKHYSLTGSKKKSGLSASMDSSNKPKILYGTGSDSTESYDPSYILDSP-------SSEVV------------QLVAAQQISDSPDAANINSHSSLSKYQSDDLEGQFTEAMDFDDSRMRLKLQELERELLDENDEDDSILGPNESMEIESGWADAVPNALIHDSPKESSSIDSNISSISSSKEVSLLPDDNPKQLLFYCAVTISNGNVENASTMIDELRQRVSIQGEPSERIAAYMVEALAARMATSGKGLYKALKCKEAPSLDRLSAMQVLFEVCPCFRFGFMAANGAIIEALENERKVHIVDFDINQGSQYITLLQTLANYHGKLPLLRLTGVDDPESLQRATGSLKLIGQRLEQLAQALEVPFEFQAVVANTEEVTPAILDHHPDEALVVNFAFQLHHMPDESVSTVNQRDKLLRMVKSMNPKLVTVVEQDVNTNTAPFLPRFAEAYNFYYAIFDSLDATLPRDSQDRMNVEKQCLARDIVNVVACEGEERIERYEVAGKWRARMMMAGFEACPIGPDVNVSIRELIKRYSDRFKVKEEINALHFGWQDKILIVASAWK 556
MSLV S S++SYGN K YSL GS SGLS + +S+K +I+Y + S S+E YDP Y LDSP SS ++ QL+ AQ +S A + + S ++S+ L +A+D+D+ +M+LKL ELE LL+E D+D+ GP +SM+I+ W D + N L+HDSPKESSS SNISSISS+KE+SL PKQLLF CA IS+GN+E ASTMI+ELRQ VSIQGEPS+RIAAYMVEALAARMATSGKGLYKALKCKE PSLD+LSAMQVLFEVCPCFRFGFMAANGAI EA + E++VHI+DFDINQGSQYITL+QTLA GK PLLRLTGVDDPES+QRA G LKLIGQRLE+LA+ LEVPFEF+AV + T VTPAILD P EALVVNFAFQLHHMPDESVSTVNQRD+LLRMVKS+NPKLVT+VEQD+NTNTAPFLPRFAEAYN+Y A+FDSLDATL R SQDRMNVE+QCLAR+I+N+VACEGEERIERYEVAGKWRARMMMAGF +CPI +VN +IR+LIK+YSDRFKVKEE +LHFGW+DK LIVASAW+
Sbjct: 1 MSLVRSVDLSATSYGNPKLYSLKGSSDSSGLSTPIFNSDKHRIMYASESCSSEDYDPKYFLDSPTELIHPSSSSILGNPFHSQDASSYQLMPAQNSFNSSFVALRHHDAYQSNFESEYLGSPSLDAIDYDEDKMKLKLLELESVLLNEKDDDE--FGPYQSMDIDGEWGDPIHNVLLHDSPKESSSSYSNISSISSNKEISLTTSQTPKQLLFDCAAAISDGNIEEASTMINELRQMVSIQGEPSQRIAAYMVEALAARMATSGKGLYKALKCKEPPSLDQLSAMQVLFEVCPCFRFGFMAANGAITEAFKEEKRVHIIDFDINQGSQYITLIQTLAEQPGKRPLLRLTGVDDPESVQRAIGGLKLIGQRLEKLAEVLEVPFEFRAVASKTSLVTPAILDCRPGEALVVNFAFQLHHMPDESVSTVNQRDQLLRMVKSLNPKLVTIVEQDMNTNTAPFLPRFAEAYNYYSAVFDSLDATLQRHSQDRMNVERQCLAREIINIVACEGEERIERYEVAGKWRARMMMAGFTSCPISRNVNEAIRKLIKQYSDRFKVKEETGSLHFGWEDKFLIVASAWR 576
BLAST of DCAR_001121 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7AIQ7 ((Uncharacterized protein {ECO:0000313|EMBL:MPA55401.1}))
HSP 1 Score: 768.459 bits (1983), Expect = 0.000e+0
Identity = 395/581 (67.99%), Postives = 471/581 (81.07%), Query Frame = 0
Match: A0A5B7AIQ7 ((Uncharacterized protein {ECO:0000313|EMBL:MPA55401.1}))
HSP 1 Score: 768.459 bits (1983), Expect = 0.000e+0
Identity = 395/581 (67.99%), Postives = 471/581 (81.07%), Query Frame = 0
Query: 1 MSLVGS---SSSSYGNRKHYSLTGSKKKSGLSASMDSSNKPKILYGTGSDSTESYDPSYILDSPSSEVVQ--------------------LVAAQQISDSPDAANINSHSSLSKYQSDDLEGQFTEAMDFDDSRMRLKLQELERELLDENDEDDS--ILGPNESMEIESGWADAVPNALIHDSPKESSSIDSNISSISSSKEVSLLPDDNPKQLLFYCAVTISNGNVENASTMIDELRQRVSIQGEPSERIAAYMVEALAARMATSGKGLYKALKCKEAPSLDRLSAMQVLFEVCPCFRFGFMAANGAIIEALENERKVHIVDFDINQGSQYITLLQTLANYHGKLPLLRLTGVDDPESLQRATGSLKLIGQRLEQLAQALEVPFEFQAVVANTEEVTPAILDHHPDEALVVNFAFQLHHMPDESVSTVNQRDKLLRMVKSMNPKLVTVVEQDVNTNTAPFLPRFAEAYNFYYAIFDSLDATLPRDSQDRMNVEKQCLARDIVNVVACEGEERIERYEVAGKWRARMMMAGFEACPIGPDVNVSIRELIKRYSDRFKVKEEINALHFGWQDKILIVASAWK 556
MSLV S S++SYGN K YSL GS SGLS + +S+K +I+Y S S+E YDP Y LDSP+ E++Q L+ AQ +S + + + S ++S++LE +A+D+D+ RMRLKLQELER LL++ND+DD + GP++SM+I+ WAD + N L+HDSPKESSS DSNISSISS+KE+ + PKQLLF CA IS+GN+E ASTMI+ELRQRVSIQG+P +RIAAYMVEALAARM+TSGKGLYKALKCKE PSLD+LSAMQVLFEVCPCFRFGFMAANGAI+EA E+E++VH++DFDINQGSQYITL++TLA GK P LRLTGVDDPES+QRA G L IGQRLE+LA++LEVPFEFQAV + T VTPA+LD P EALVVNFAFQLHHMPDESVSTVNQRD+LLRMVKS+ PKLVTVVEQDVNTNTAPF PRF EAYN+Y A+F+SLDATL RDSQDRMNVEKQCLAR+I+N+VACEGEERIERYEVAGKWRARMMMAGF++CPI P+VN +IR+LIK+YSDR+KVKEE +LHFGW+DK+LIVASAWK
Sbjct: 1 MSLVRSADLSAASYGNPKLYSLKGSSNSSGLSTPIFNSDKHRIMYAAESYSSEGYDPKYFLDSPTEELIQPSSSSIPGNPFHPQGASSYQLMHAQNSFNSSFVSMRHHDAYQSNFESENLESSSLDAIDYDEDRMRLKLQELERALLNDNDDDDDDDMFGPDQSMDIDVEWADPIHNLLLHDSPKESSSSDSNISSISSNKEILVTTARTPKQLLFDCAAAISDGNIEEASTMINELRQRVSIQGDPPQRIAAYMVEALAARMSTSGKGLYKALKCKEPPSLDQLSAMQVLFEVCPCFRFGFMAANGAILEAFEDEKRVHMIDFDINQGSQYITLIETLAKRPGKPPHLRLTGVDDPESVQRAIGGLINIGQRLEELAESLEVPFEFQAVASKTSGVTPAMLDCRPGEALVVNFAFQLHHMPDESVSTVNQRDQLLRMVKSLKPKLVTVVEQDVNTNTAPFFPRFVEAYNYYSAVFESLDATLLRDSQDRMNVEKQCLAREIINIVACEGEERIERYEVAGKWRARMMMAGFKSCPISPNVNDAIRKLIKQYSDRYKVKEETGSLHFGWEDKVLIVASAWK 581
BLAST of DCAR_001121 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5B549 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8538333.1}))
HSP 1 Score: 759.214 bits (1959), Expect = 0.000e+0
Identity = 391/586 (66.72%), Postives = 469/586 (80.03%), Query Frame = 0
Match: A0A5J5B549 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8538333.1}))
HSP 1 Score: 759.214 bits (1959), Expect = 0.000e+0
Identity = 391/586 (66.72%), Postives = 469/586 (80.03%), Query Frame = 0
Query: 1 MSLVGS---SSSSYGNRKHYSLTGSKKKSGLSASMDSSNKPKILYGTGSDSTESYDPSYILDSPSSEVVQ--------------------LVAAQQISDSPDAANINSHSSLSKYQSDDLEGQFTEAMDFDDSRMRLKLQELERELLDENDEDDS-------ILGPNESMEIESGWADAVPNALIHDSPKESSSIDSNISSISSSKEVSLLPDDNPKQLLFYCAVTISNGNVENASTMIDELRQRVSIQGEPSERIAAYMVEALAARMATSGKGLYKALKCKEAPSLDRLSAMQVLFEVCPCFRFGFMAANGAIIEALENERKVHIVDFDINQGSQYITLLQTLANYHGKLPLLRLTGVDDPESLQRATGSLKLIGQRLEQLAQALEVPFEFQAVVANTEEVTPAILDHHPDEALVVNFAFQLHHMPDESVSTVNQRDKLLRMVKSMNPKLVTVVEQDVNTNTAPFLPRFAEAYNFYYAIFDSLDATLPRDSQDRMNVEKQCLARDIVNVVACEGEERIERYEVAGKWRARMMMAGFEACPIGPDVNVSIRELIKRYSDRFKVKEEINALHFGWQDKILIVASAWK 556
MSLV S S++SYGN K Y L GS SGLSA + +S+K +I+Y S S+E YDP Y LDSP+ E+VQ L+ AQ +S + + + S ++S++LE +A+ +D+ +MRLKLQELER LL++N++DD + GP++SM+I+ WA+ + N L+HDSPKESSS DSNISSISS+KE+S+ PKQLLF CA IS+GN++ ASTMI+ELRQRVSIQG+P +RIAAYMVEALAARM+TSGKGLYKALKCKE PSLDRLSAMQVLFEVCPCFRFGFMAANGAI+EA ++E++VHIVDFD+NQGSQYITL+QTLA + GK P LRLTGVDDPES+QRA G L IGQRL++LA+ +VPFEFQAV + T VTPA+LD P EALVVNFAFQLHHMPDESVSTVNQRD+LLRMVKS+ PKLVTVVEQD+NTNTAPF PRF EAYN+Y A+FDSLDATL RDSQDRMNVEKQCLARDI+N+VACEGEERIERYEVAGKWRARMMMAGF++CPI P VN SI+ELI++YSDRFKVK+E +LHFGW+DK+LIVASAW+
Sbjct: 1 MSLVRSADLSAASYGNPKLYKLKGSSNSSGLSAPIFNSDKHRIMYAAESYSSEGYDPKYFLDSPTEELVQPSSSSIPGNPFHPQGASSYQLMHAQDSFNSSFVSMRHHDAYQSIFESENLESPSPDAIGYDEDKMRLKLQELERALLNDNNDDDDDDDDDDDMFGPDQSMDIDLEWANPIHNLLLHDSPKESSSTDSNISSISSNKEISVTTARTPKQLLFDCAAAISDGNIKEASTMINELRQRVSIQGDPPQRIAAYMVEALAARMSTSGKGLYKALKCKEPPSLDRLSAMQVLFEVCPCFRFGFMAANGAIMEAFKDEKRVHIVDFDLNQGSQYITLIQTLAKWPGKPPHLRLTGVDDPESVQRAIGGLINIGQRLKELAEGHKVPFEFQAVASKTSVVTPAMLDCQPGEALVVNFAFQLHHMPDESVSTVNQRDQLLRMVKSLKPKLVTVVEQDMNTNTAPFFPRFVEAYNYYSAVFDSLDATLQRDSQDRMNVEKQCLARDIINIVACEGEERIERYEVAGKWRARMMMAGFKSCPISPKVNHSIQELIQQYSDRFKVKQETGSLHFGWEDKVLIVASAWR 586
BLAST of DCAR_001121 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7AJZ6 ((Putative scarecrow-like protein 1 {ECO:0000313|EMBL:MPA55403.1}) (3.6.4.13 {ECO:0000313|EMBL:MPA55403.1}))
HSP 1 Score: 758.059 bits (1956), Expect = 0.000e+0
Identity = 397/586 (67.75%), Postives = 467/586 (79.69%), Query Frame = 0
Match: A0A5B7AJZ6 ((Putative scarecrow-like protein 1 {ECO:0000313|EMBL:MPA55403.1}) (3.6.4.13 {ECO:0000313|EMBL:MPA55403.1}))
HSP 1 Score: 758.059 bits (1956), Expect = 0.000e+0
Identity = 397/586 (67.75%), Postives = 467/586 (79.69%), Query Frame = 0
Query: 1 MSLVGS---SSSSYGNRKHYSLTGSKKKSGLSASMDSSNKPKILYGTGSDSTESY--DPSYILDSPSSEVV--------------------QLVAAQQISDSPDAANINSHSSLSKYQSDDLEGQFTEAMDFDDSRMRLKLQELERELLDENDEDDS-----ILGPNESMEIESGWADAVPNALIHDSPKESSSIDSNISSISSSKEVSLLPDDNPKQLLFYCAVTISNGNVENASTMIDELRQRVSIQGEPSERIAAYMVEALAARMATSGKGLYKALKCKEAPSLDRLSAMQVLFEVCPCFRFGFMAANGAIIEALENERKVHIVDFDINQGSQYITLLQTLANYHGKLPLLRLTGVDDPESLQRATGSLKLIGQRLEQLAQALEVPFEFQAVVANTEEVTPAILDHHPDEALVVNFAFQLHHMPDESVSTVNQRDKLLRMVKSMNPKLVTVVEQDVNTNTAPFLPRFAEAYNFYYAIFDSLDATLPRDSQDRMNVEKQCLARDIVNVVACEGEERIERYEVAGKWRARMMMAGFEACPIGPDVNVSIRELIKRYSDRFKVKEEINALHFGWQDKILIVASAWK 556
MSLV S S++SYGN K YSL GS SGLS + +S+K +I+Y S+S S DP Y LDSP+ E++ QL+ AQ DSP + + + S ++S+ LE +A+D+D+ +MRLKLQELER LL+END+DD + GP +SM+I+ WAD + N L+HDSPKESSS DSNISSISS+KE+SL PKQLLF CA ISNGN+E ASTMI+ LRQRVSIQG+P +RIAAYMVEALAARMATSGKGLYKALKCK PSLD+LSAMQVLFEVCPCFRFGF+AANGAI+EA + E++VHI+DFDINQGSQYITL+QTLA GKLP LRLTGVDDPES+QRA G L LIGQRLE+LA+ALEV FEF+AV + T VTPA+LD P EALVVNFAFQLHHMPDESVSTVNQRD+LLRMVK +NPKLVT+VEQDVNTNTAPFLPRFAEAYN+Y A+F+SLDATL R+SQDRMNVE+QCLARDI+N+VACEGEERIERYEVAGKWRARMMMAGF ACPI +VN +IR+LI +YSDR+KVKEE +LHFGW+DK+LIVASAW+
Sbjct: 1 MSLVRSADLSAASYGNPKLYSLKGSSNSSGLSTPIFNSDKHRIMYTAESESYSSESYDPKYFLDSPTEELIHPSSSSIPGNPFHSQGASSYQLMPAQNSFDSPFVSMRHHDAYQSTFESE-LESLSPDAIDYDEDKMRLKLQELERALLNENDDDDDDDDDDMFGPYQSMDIDGEWADQIHNVLLHDSPKESSSSDSNISSISSNKEISLTTSRTPKQLLFDCAAVISNGNIEEASTMINVLRQRVSIQGDPPQRIAAYMVEALAARMATSGKGLYKALKCKVPPSLDQLSAMQVLFEVCPCFRFGFVAANGAIMEAFKGEKRVHIIDFDINQGSQYITLMQTLAKQPGKLPHLRLTGVDDPESVQRAIGGLNLIGQRLEKLAEALEVSFEFRAVASKTSVVTPAMLDCQPGEALVVNFAFQLHHMPDESVSTVNQRDQLLRMVKGLNPKLVTIVEQDVNTNTAPFLPRFAEAYNYYSAVFESLDATLARNSQDRMNVERQCLARDIINIVACEGEERIERYEVAGKWRARMMMAGFTACPISRNVNDAIRKLIMQYSDRYKVKEETGSLHFGWEDKVLIVASAWR 585
BLAST of DCAR_001121 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A4S4DGT7 ((Uncharacterized protein {ECO:0000313|EMBL:THG01980.1}))
HSP 1 Score: 732.25 bits (1889), Expect = 0.000e+0
Identity = 385/597 (64.49%), Postives = 458/597 (76.72%), Query Frame = 0
Match: A0A4S4DGT7 ((Uncharacterized protein {ECO:0000313|EMBL:THG01980.1}))
HSP 1 Score: 732.25 bits (1889), Expect = 0.000e+0
Identity = 385/597 (64.49%), Postives = 458/597 (76.72%), Query Frame = 0
Query: 1 MSLVGSS---SSSYGNRKHYSLTGSKKKSGLSASMDSSNKPKILYGTGSDSTESYDPSYILDSPSSEVVQLVAAQQISDSPDAANINSHSSLSKY---------------------------------QSDDLEGQFTEAMDFDDSRMRLKLQELERELLDENDEDDSI----LGPNESMEIESGWADAVPNALIHDSPKESSSIDSNISSISSSKEVSLLPDD-NPKQLLFYCAVTISNGNVENASTMIDELRQRVSIQGEPSERIAAYMVEALAARMATSGKGLYKALKCKEAPSLDRLSAMQVLFEVCPCFRFGFMAANGAIIEALENERKVHIVDFDINQGSQYITLLQTLANYHGKLPLLRLTGVDDPESLQRATGSLKLIGQRLEQLAQALEVPFEFQAVVANTEEVTPAILDHHPDEALVVNFAFQLHHMPDESVSTVNQRDKLLRMVKSMNPKLVTVVEQDVNTNTAPFLPRFAEAYNFYYAIFDSLDATLPRDSQDRMNVEKQCLARDIVNVVACEGEERIERYEVAGKWRARMMMAGFEACPIGPDVNVSIRELIKRYSDRFKVKEEINALHFGWQDKILIVASAWK 556
MSLV S + SYGN K Y+L S S +S + +S+K KI+Y T S S+ESYDP Y LDSP+ E + S+S D+ N +S Y +S+ LEG+ A+D+D+ +MRLKLQELER LLD+N+ + G ++SMEI+S WA+ + N L+HDSPKESSS DSN+++ISS+KE+SL PKQLLF CA IS GNV AST+I++LRQRVSIQG+PS+RIAAYMVEALAAR+ATSGKGLY+ALKCKE PS DRLS+MQVLFEVCPCFRFGFMAANGAIIEA ++E+K+HIVDFDINQGSQYITL+QTLA GKLP LRLTGVDDPES+QRA G L LIGQRL++LA+ L+VPFEFQAV A T VTP++LD EAL+VNFAFQLHHMPDESVSTVNQRD+LLRMVKS+NPKLVTVVEQ++NTNTAPFL RF EAY++Y A+FDSL+ATLPR+SQDR+NVEKQCLARDIVN+VACEGEERIERYEVAGKWRARMMMAGF ACPI +V+ IR+LIK+Y +RFKVKEE ALHFGW+DKIL VASAW+
Sbjct: 1 MSLVRSQDQFARSYGNPKLYALNESSDDSSISTPIFNSDKHKIMYETESYSSESYDPKYFLDSPTEEFMH------SSNSADSVNRFHPQGVSSYNHRMAGSRPVMTAQNPFNSFVGIRHQDGYRPNFESEYLEGKSPNAIDYDEDKMRLKLQELERALLDDNNNVEDDDDDAFGTDQSMEIDSEWANPICNTLLHDSPKESSSSDSNLTTISSNKEISLTSSPATPKQLLFNCAAMISEGNVAEASTLINDLRQRVSIQGDPSQRIAAYMVEALAARVATSGKGLYEALKCKEPPSNDRLSSMQVLFEVCPCFRFGFMAANGAIIEAFKDEKKIHIVDFDINQGSQYITLIQTLAKLPGKLPRLRLTGVDDPESVQRAVGGLNLIGQRLKELAKTLDVPFEFQAVAAKTAAVTPSMLDRQAGEALLVNFAFQLHHMPDESVSTVNQRDQLLRMVKSLNPKLVTVVEQEMNTNTAPFLTRFVEAYSYYSAVFDSLEATLPRESQDRLNVEKQCLARDIVNIVACEGEERIERYEVAGKWRARMMMAGFAACPISENVSDVIRKLIKQYCERFKVKEETGALHFGWEDKILTVASAWR 591
BLAST of DCAR_001121 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2I4DYW2 ((scarecrow-like protein 1 {ECO:0000313|RefSeq:XP_018812342.1, ECO:0000313|RefSeq:XP_018812343.1}))
HSP 1 Score: 724.161 bits (1868), Expect = 0.000e+0
Identity = 368/574 (64.11%), Postives = 448/574 (78.05%), Query Frame = 0
Match: A0A2I4DYW2 ((scarecrow-like protein 1 {ECO:0000313|RefSeq:XP_018812342.1, ECO:0000313|RefSeq:XP_018812343.1}))
HSP 1 Score: 724.161 bits (1868), Expect = 0.000e+0
Identity = 368/574 (64.11%), Postives = 448/574 (78.05%), Query Frame = 0
Query: 1 MSLVGS---SSSSYGNRKHYSLTGSKKKSGLSASMDSSNKPKILYGTGSDSTESYDPSYILDSPSSEVVQLVAAQQISDS------------PDAANINSHSSLSKYQSD---DLEGQFTEAMDFDDSRMRLKLQELERELLDENDEDDSILGPNESMEIESGWADAVPNALIHDSPKESSSIDSNISSISSSKEVSLLPDDNPKQLLFYCAVTISNGNVENASTMIDELRQRVSIQGEPSERIAAYMVEALAARMATSGKGLYKALKCKEAPSLDRLSAMQVLFEVCPCFRFGFMAANGAIIEALENERKVHIVDFDINQGSQYITLLQTLANYHGKLPLLRLTGVDDPESLQRATGSLKLIGQRLEQLAQALEVPFEFQAVVANTEEVTPAILDHHPDEALVVNFAFQLHHMPDESVSTVNQRDKLLRMVKSMNPKLVTVVEQDVNTNTAPFLPRFAEAYNFYYAIFDSLDATLPRDSQDRMNVEKQCLARDIVNVVACEGEERIERYEVAGKWRARMMMAGFEACPIGPDVNVSIRELIKRYSDRFKVKEEINALHFGWQDKILIVASAWK 556
MSLV S SS+SY N K YSL GS GLSA + S+K K+ + T S +ESY+ Y LDSP+ E++Q ++ +S P + S L Y+S+ D + +A+D+D+ MRLKLQELER L ND+DD + G SME++ WAD V N L+HDSPKESSS DSN+SSISS+KEVS L P+Q+L CA +++GN AS MI+ELRQ VS+QG+P +RIAAYMVE LAARMA SGK LYKALKCKE PS DRL+AMQ+LFEVCPCF+FGFMAANGA+IEA ++E++VHI+DFDINQGSQY+TL+QT+AN G P LRLTGVDDPES+QR+ G LK+IGQRLE LA+AL VPFEFQA+ + T VTP++LD P EAL+VNF+FQLHHMPDESVSTVN+RD+LLR+VKS+NPKLVTVVEQDVNTNTAPF PRF EAYN+Y A+FDSLDATLPRDSQDR+NVE+QCLARDIVN+VACEGEERIERYEVAGKWRARMMMAGF +CP+GP++ +I++ I++Y DR+KVKEE+ ALHFGW DK LIVASAW+
Sbjct: 1 MSLVRSAELSSTSYKNPKLYSLKGSDDSPGLSAQIFGSDKHKVTHMTDSYCSESYE-KYFLDSPTEELIQPSSSGISGNSFESRGPSSSTQNPFGTPLVSMRHLDAYRSNFELDYLERSLDAIDYDEDNMRLKLQELERALF--NDDDDDMFGTGHSMEVDVEWADPVQNTLLHDSPKESSSTDSNLSSISSNKEVSQLSPRTPRQMLIDCAGALADGNTMEASVMINELRQMVSVQGDPPQRIAAYMVEGLAARMAASGKCLYKALKCKEPPSSDRLAAMQILFEVCPCFKFGFMAANGAMIEAFKDEKRVHIIDFDINQGSQYMTLIQTIANRAGNPPQLRLTGVDDPESVQRSVGGLKIIGQRLENLAEALGVPFEFQALASKTSIVTPSMLDCRPGEALMVNFSFQLHHMPDESVSTVNERDQLLRLVKSLNPKLVTVVEQDVNTNTAPFFPRFIEAYNYYSAVFDSLDATLPRDSQDRINVERQCLARDIVNIVACEGEERIERYEVAGKWRARMMMAGFTSCPMGPNLIDTIQKQIRQYCDRYKVKEEMGALHFGWADKSLIVASAWR 571
BLAST of DCAR_001121 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2R6QYR2 ((Scarecrow-like protein {ECO:0000313|EMBL:PSS17493.1}))
HSP 1 Score: 718.768 bits (1854), Expect = 0.000e+0
Identity = 380/581 (65.40%), Postives = 455/581 (78.31%), Query Frame = 0
Match: A0A2R6QYR2 ((Scarecrow-like protein {ECO:0000313|EMBL:PSS17493.1}))
HSP 1 Score: 718.768 bits (1854), Expect = 0.000e+0
Identity = 380/581 (65.40%), Postives = 455/581 (78.31%), Query Frame = 0
Query: 1 MSLV---GSSSSSYGNRKHYSLTGSKKKSGLSASMDSSNKP-KILYGTGSDSTESYDPSYILDSPSSEVVQLVAAQQISDSPDAANINSHSSLS------------------KYQSDDLEGQFTEAMDFDDSRMRLKLQELERELLDENDEDDSI--LGPNESMEIESGWADAVPNALIHDSPKESSSIDSNISSISSSKEVSLLPD-DNPKQLLFYCAVTISNGNVENASTMIDELRQRVSIQGEPSERIAAYMVEALAARMATSGKGLYKALKCKEAPSLDRLSAMQVLFEVCPCFRFGFMAANGAIIEALENERKVHIVDFDINQGSQYITLLQTLANYHGKLPLLRLTGVDDPESLQRATGSLKLIGQRLEQLAQALEVPFEFQAVVANTEEVTPAILDHHPDEALVVNFAFQLHHMPDESVSTVNQRDKLLRMVKSMNPKLVTVVEQDVNTNTAPFLPRFAEAYNFYYAIFDSLDATLPRDSQDRMNVEKQCLARDIVNVVACEGEERIERYEVAGKWRARMMMAGFEACPIGPDVNVSIRELIKRYSDRFKVKEEINALHFGWQDKILIVASAWK 556
MSLV + SYGN K Y+L GS G+S + ++ K KI+Y T S S+ESYD Y LDSP+ E V ++ S++P + S S + ++S+ LE Q +A+D+ + MRLKL+ELER LLD+ND D+ GP++SMEI+ WA + N L H+SPKESSS DSN+SSISS+KE+SL PKQLL+ CAV IS GN+ +AST+I++LRQRVSIQG P+ERIAAYMVEALAAR+ATSGKGLYKALKCKE PS DRLSAMQVLFEVCPCFRFGFMAANGAIIEA ++E+++HI+DFDINQGSQYITL+QTLA GK P LRLTGVDDPES+QR+ G LK+IGQRLE+LA+ L+V FEF+AV ANT EV PA+L+ EAL+VNFAFQLHHMPDESVSTVNQRD+LLRMVKS NPKLVTVVEQDVNTNTAPFLPRFAEAYN+Y A++DSLDATLPRDSQDR+NVEK CLARDIVN+VACEGEERIERYE+AGKWRARMMMAGF+ PI +VN IR+LIK+Y DR+KVK+E ALHF W+D++LIVASAW+
Sbjct: 1 MSLVRFQDQYARSYGNPKLYALNGSNDSPGISTPIFNTEKHNKIMYATESCSSESYDLKYFLDSPTEEFVH-SSSYSNSENPFHPQVRSTSMTALTPFNSFVAMQHQDPYQANFESEYLESQSPDAVDYGEDEMRLKLRELERALLDDNDVDEDDDAFGPDQSMEIDGEWAHPICNPLRHESPKESSSSDSNLSSISSTKEISLTSSPQTPKQLLYDCAVMISEGNIADASTVINDLRQRVSIQGSPTERIAAYMVEALAARVATSGKGLYKALKCKEPPSNDRLSAMQVLFEVCPCFRFGFMAANGAIIEASKDEKRIHIIDFDINQGSQYITLIQTLAKQPGKPPQLRLTGVDDPESVQRSVGGLKVIGQRLEELAKELKVQFEFRAVAANTAEVNPAMLNCRAGEALIVNFAFQLHHMPDESVSTVNQRDQLLRMVKSFNPKLVTVVEQDVNTNTAPFLPRFAEAYNYYSAVYDSLDATLPRDSQDRLNVEKHCLARDIVNIVACEGEERIERYELAGKWRARMMMAGFKPWPISSNVNELIRKLIKQYCDRYKVKDESGALHFAWEDRVLIVASAWR 580
BLAST of DCAR_001121 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A191UPV5 ((Scarecrow-like 3 {ECO:0000313|EMBL:ANJ03599.1}))
HSP 1 Score: 717.998 bits (1852), Expect = 0.000e+0
Identity = 367/581 (63.17%), Postives = 455/581 (78.31%), Query Frame = 0
Match: A0A191UPV5 ((Scarecrow-like 3 {ECO:0000313|EMBL:ANJ03599.1}))
HSP 1 Score: 717.998 bits (1852), Expect = 0.000e+0
Identity = 367/581 (63.17%), Postives = 455/581 (78.31%), Query Frame = 0
Query: 1 MSLV---GSSSSSYGNRKHYSLTGSKKKSGLSASMDSSNKPKILYGTGSDSTESYDPSYILDSPSSEVVQLVAAQQISDS--PDAANINSHSSL--------------SKYQSDDLEGQFTEAMDFDDSRMRLKLQELERELLDENDEDDS------ILGPNESMEIESGWADAVPNALIHDSPKESSSIDSNISSISSSKEVSLLPDDNPKQLLFYCAVTISNGNVENASTMIDELRQRVSIQGEPSERIAAYMVEALAARMATSGKGLYKALKCKEAPSLDRLSAMQVLFEVCPCFRFGFMAANGAIIEALENERKVHIVDFDINQGSQYITLLQTLANYHGKLPLLRLTGVDDPESLQRATGSLKLIGQRLEQLAQALEVPFEFQAVVANTEEVTPAILDHHPDEALVVNFAFQLHHMPDESVSTVNQRDKLLRMVKSMNPKLVTVVEQDVNTNTAPFLPRFAEAYNFYYAIFDSLDATLPRDSQDRMNVEKQCLARDIVNVVACEGEERIERYEVAGKWRARMMMAGFEACPIGPDVNVSIRELIKRYSDRFKVKEEINALHFGWQDKILIVASAWK 556
MSLV G S++SY N K YSL GS LS + S+K K +Y T S S+ESY+ Y LDSP+ E++Q + +S P+ ++ + + S ++SD LE Q + +D+D+ +MRLKLQELER LL++ND+DD I G + SMEI+ WAD V N L+HDSPKESSS DSN+SSISS+KEVS + P+Q+L CA +++GN+ AS MI+ LR VSIQG+P +RIAAYMVE LAARMA+SGK LY ALKCKE PS DRL+AMQ+LFEVCPCF+FGFMAANGA+IEA ++E++VHIVDFDINQGSQYITL+QT+AN GK P +RLTG+DDPES+QR+ G LK+IGQRLE+LA+AL+VPFEF+AV + T +TP++L+ P EAL+VNFAFQLHHMPDESVSTVNQRD+LLRMVKS+NPKLVTVVEQDVNTNTAPFLPRF EAYN+Y A+F+SLDATLPR+SQDRMNVE+QCLARDIVN+VACEGEERIERYEVAGKWRARM MAGF +CP+GP V +I+ LI+ Y DR+K+K+E+ ALHFGW++K LIVASAW+
Sbjct: 1 MSLVRAAGLSATSYRNSKLYSLKGSDDSPSLSTQILGSDKHKTIYVTDSYSSESYE-KYFLDSPTEELIQPSNSGISGNSFHPNGISMGTRNPFDTSLMSLRHRDAYQSNFESDYLESQSPDPIDYDEDKMRLKLQELERALLEDNDDDDDDDDDDDIFGTDHSMEIDGEWADPVHNTLLHDSPKESSSTDSNLSSISSNKEVSQVSTRTPRQMLLDCAGALADGNIMEASAMINNLRNMVSIQGDPPQRIAAYMVEGLAARMASSGKCLYNALKCKEPPSSDRLAAMQILFEVCPCFKFGFMAANGAMIEAFKDEKRVHIVDFDINQGSQYITLIQTIANNLGKPPHVRLTGIDDPESIQRSVGGLKIIGQRLEKLAEALKVPFEFRAVASKTSIITPSMLNCRPGEALLVNFAFQLHHMPDESVSTVNQRDQLLRMVKSLNPKLVTVVEQDVNTNTAPFLPRFVEAYNYYSAVFESLDATLPRESQDRMNVERQCLARDIVNIVACEGEERIERYEVAGKWRARMTMAGFTSCPMGPKVIDTIQNLIREYCDRYKLKKEMGALHFGWEEKNLIVASAWR 580
BLAST of DCAR_001121 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7N2MK96 ((Uncharacterized protein {ECO:0000313|EnsemblPlants:QL09p029063:mrna:CDS:1}))
HSP 1 Score: 716.842 bits (1849), Expect = 0.000e+0
Identity = 369/580 (63.62%), Postives = 455/580 (78.45%), Query Frame = 0
Match: A0A7N2MK96 ((Uncharacterized protein {ECO:0000313|EnsemblPlants:QL09p029063:mrna:CDS:1}))
HSP 1 Score: 716.842 bits (1849), Expect = 0.000e+0
Identity = 369/580 (63.62%), Postives = 455/580 (78.45%), Query Frame = 0
Query: 1 MSLV---GSSSSSYGNRKHYSLTGSKKKSGLSASMDSSNKPKILYGTGSDSTESYDPSYILDSPSSEVVQLVAAQQISDS--PDAANINSHSSL--------------SKYQSDDLEGQFTEAMDFDDSRMRLKLQELERELLDENDEDDS-----ILGPNESMEIESGWADAVPNALIHDSPKESSSIDSNISSISSSKEVSLLPDDNPKQLLFYCAVTISNGNVENASTMIDELRQRVSIQGEPSERIAAYMVEALAARMATSGKGLYKALKCKEAPSLDRLSAMQVLFEVCPCFRFGFMAANGAIIEALENERKVHIVDFDINQGSQYITLLQTLANYHGKLPLLRLTGVDDPESLQRATGSLKLIGQRLEQLAQALEVPFEFQAVVANTEEVTPAILDHHPDEALVVNFAFQLHHMPDESVSTVNQRDKLLRMVKSMNPKLVTVVEQDVNTNTAPFLPRFAEAYNFYYAIFDSLDATLPRDSQDRMNVEKQCLARDIVNVVACEGEERIERYEVAGKWRARMMMAGFEACPIGPDVNVSIRELIKRYSDRFKVKEEINALHFGWQDKILIVASAWK 556
MSLV G S+ SY N K YSL GS LS + S+K K +Y T S S+ESY+ Y LDSP+ E++Q ++ +S PD ++ + + S ++SD LE Q + +D+D+ +MRLKLQELER LL++ND+DD I G + SMEI+ WAD V N L+HDSPKESSS DSN+SSISS+KEVS + P+Q+L CA +++GN AS MI+ LR VSIQG+P +RIAAYMVE LAARMA+SGK LYKALKCKE PS DRL+AMQ+LFEVCPCF+FG++AANGA+IEA ++E++VHIVDFDINQGSQYITL+QT+AN GK P +RLTGVDDPES+QR+ G LK+IGQRLE+LA+AL+VPFEF+AV + T +TP++L+ P EAL+VNFAFQLHHMPDESVSTVNQRD+LLRMVKS+NPKLVTVVEQDVNTNTAPFLPRF EAYN+Y A+F+SL+ATLPR+SQDRMNVE+QCLARDIVN+VACEGEERIERYEVAGKWRARM MAGF +CP+GP V +I+ LI+ Y DR+KVK+E+ ALHFGW+DK LIVASAW+
Sbjct: 1 MSLVRSAGLSAPSYRNSKLYSLKGSDDSPSLSTQILGSDKHKTIYVTDSYSSESYE-KYFLDSPTEELIQPSSSGISGNSFHPDGISMCTRNPFDISLMSMRHRDAYQSNFESDYLESQSPDPIDYDEDKMRLKLQELERALLEDNDDDDDDDDDDIFGTDHSMEIDGEWADPVHNTLLHDSPKESSSTDSNLSSISSNKEVSQVSPRTPRQMLLDCAGALADGNFMEASAMINNLRNMVSIQGDPPQRIAAYMVEGLAARMASSGKCLYKALKCKEPPSSDRLAAMQILFEVCPCFKFGYVAANGAMIEAFKDEKRVHIVDFDINQGSQYITLIQTIANTLGKPPHVRLTGVDDPESVQRSVGGLKIIGQRLEKLAEALKVPFEFRAVASKTSIITPSMLNCRPGEALLVNFAFQLHHMPDESVSTVNQRDQLLRMVKSLNPKLVTVVEQDVNTNTAPFLPRFVEAYNYYSAVFESLEATLPRESQDRMNVERQCLARDIVNIVACEGEERIERYEVAGKWRARMTMAGFTSCPMGPKVIDTIQNLIREYCDRYKVKKEMGALHFGWEDKNLIVASAWR 579
BLAST of DCAR_001121 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A4U5R4S0 ((SCARECROW-LIKE 1 family protein {ECO:0000313|EMBL:TKS18658.1}))
HSP 1 Score: 716.457 bits (1848), Expect = 0.000e+0
Identity = 369/587 (62.86%), Postives = 452/587 (77.00%), Query Frame = 0
Match: A0A4U5R4S0 ((SCARECROW-LIKE 1 family protein {ECO:0000313|EMBL:TKS18658.1}))
HSP 1 Score: 716.457 bits (1848), Expect = 0.000e+0
Identity = 369/587 (62.86%), Postives = 452/587 (77.00%), Query Frame = 0
Query: 1 MSLVGS---SSSSYGNRKHYSLTGSKKKSGLSASMDSSNKPKILYGTGSDSTESYDPSYILDSPSSEVVQ------------------------LVAAQQISDSPDAANINSHSSLSKYQ----SDDLEGQFTEAMDFDDSRMRLKLQELERELLDENDEDDSILGPNESMEIESGWADAVPNALIHDSPKESSSIDSNISSISSSKEVSLLPDDNPKQLLFYCAVTISNGNVENASTMIDELRQRVSIQGEPSERIAAYMVEALAARMATSGKGLYKALKCKEAPSLDRLSAMQVLFEVCPCFRFGFMAANGAIIEALENERKVHIVDFDINQGSQYITLLQTLANYHGKLPLLRLTGVDDPESLQRATGSLKLIGQRLEQLAQALEVPFEFQAVVANTEEVTPAILDHHPDEALVVNFAFQLHHMPDESVSTVNQRDKLLRMVKSMNPKLVTVVEQDVNTNTAPFLPRFAEAYNFYYAIFDSLDATLPRDSQDRMNVEKQCLARDIVNVVACEGEERIERYEVAGKWRARMMMAGFEACPIGPDVNVSIRELIKRYSDRFKVKEEINALHFGWQDKILIVASAWK 556
MSLVG S++ YGN K YSL GS SG+SA + +K + +Y T S S+ESY+ Y LDSP+ E++Q L ++ D P A + YQ SD L+ + + +++D+ +M+LKLQELER LL++NDED + G ++SME++ W+D V N ++HDSPKESSS DS++SSISS+KEVS L P++LLF CA IS GN+E AST+I+ELRQ VSIQG+P +RIAAYMVE LAARMA SGK LYKALKCKE PS DRL+AMQ+LFE+CPCF+FGFMAANGA+IEA + ER+VHI+DFDINQGSQYITL+QTLAN+ GKLP LRLTG+DDPES+QR G L++IGQRLE+LA+AL+V FEF AV + T V P++L+ P EAL+VNFAFQLHHMPDESVSTVN+RD+LLRM KS+NPKLVTVVEQDVNTNTAPF PRF EAYN+Y A+FDSLDATLPR+SQDR+NVEKQCLARDIVN+VACEG+ERIERYEVAGKWRARMMMAGF +C I P+V IR+LIK Y DR+ +K+E+ ALHFGW+DK LIVASAWK
Sbjct: 1 MSLVGPAELSATPYGNHKLYSLKGSNDNSGMSAQIFCPDKRQNMYMTDSYSSESYE-KYFLDSPTEELIQPSSSGISGNSAPPQGTSSYQLRKNLGSSMSPQDDPYGACFTFTTPCEGYQFNSESDYLDIESPDPLNYDEYKMKLKLQELERALLNDNDED-GMFGNSQSMEMDGEWSDPVQNGMLHDSPKESSSSDSSLSSISSNKEVSQLSPRTPRRLLFECANAISEGNIEKASTLINELRQLVSIQGDPPQRIAAYMVEGLAARMAESGKYLYKALKCKEPPSSDRLAAMQILFEICPCFKFGFMAANGAMIEAFKGERRVHIIDFDINQGSQYITLIQTLANHQGKLPHLRLTGIDDPESVQRPVGGLRIIGQRLEKLAEALKVSFEFHAVASRTSLVNPSMLNCKPGEALIVNFAFQLHHMPDESVSTVNERDQLLRMAKSLNPKLVTVVEQDVNTNTAPFFPRFTEAYNYYSAVFDSLDATLPRESQDRLNVEKQCLARDIVNIVACEGDERIERYEVAGKWRARMMMAGFTSCSITPNVVDMIRKLIKEYCDRYMLKQEVGALHFGWEDKSLIVASAWK 585
| Match Name | Stats | Description |
|---|---|---|
| A0A5J5BWN6 | E-Value: 0.000e+0, PID: 68.51 | (Uncharacterized protein {ECO:0000313|EMBL:KAA8546... [more] |
| A0A5B7AIQ7 | E-Value: 0.000e+0, PID: 67.99 | (Uncharacterized protein {ECO:0000313|EMBL:MPA5540... [more] |
| A0A5J5B549 | E-Value: 0.000e+0, PID: 66.72 | (Uncharacterized protein {ECO:0000313|EMBL:KAA8538... [more] |
| A0A5B7AJZ6 | E-Value: 0.000e+0, PID: 67.75 | (Putative scarecrow-like protein 1 {ECO:0000313|EM... [more] |
| A0A4S4DGT7 | E-Value: 0.000e+0, PID: 64.49 | (Uncharacterized protein {ECO:0000313|EMBL:THG0198... [more] |
| A0A2I4DYW2 | E-Value: 0.000e+0, PID: 64.11 | (scarecrow-like protein 1 {ECO:0000313|RefSeq:XP_0... [more] |
| A0A2R6QYR2 | E-Value: 0.000e+0, PID: 65.40 | (Scarecrow-like protein {ECO:0000313|EMBL:PSS17493... [more] |
| A0A191UPV5 | E-Value: 0.000e+0, PID: 63.17 | (Scarecrow-like 3 {ECO:0000313|EMBL:ANJ03599.1})[more] |
| A0A7N2MK96 | E-Value: 0.000e+0, PID: 63.62 | (Uncharacterized protein {ECO:0000313|EnsemblPlant... [more] |
| A0A4U5R4S0 | E-Value: 0.000e+0, PID: 62.86 | (SCARECROW-LIKE 1 family protein {ECO:0000313|EMBL... [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. |