DCAR_031025

Resource Type: 
Polypeptide
Name: 
DCAR_031025
Identifier: 
DCAR_031025.mRNA-protein
Sequence: 
MTKAGADCSVLPNLNFDTHHHSDSRTIDDSGSKVKIFQPCKARYTDHTPC
QDQKRAMKFPRENMNYRERHCPPPEKKLRCLIPAPKGYVTPFPWPKSRDY
VPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADRYIDQLAS
VIPIDNGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQAQVQFAL
ERGVPAVIGVLGTIKMPYPSKAFDMAHCSRCLIPWGANDGIYMMEVDRVL
RPGGYWVLSGPPINWKNNYRAWQRPKEDLEEEQRKIEDIAKLLCWEKKTE
FGETAIWQKKLNTESCRASQANTCESSDPDNVWYKKMEACITPSTKSDSE
EGGAELKAFPERLYSAPPRIVSGSVPGISVETYLEDNKIWKKHVNAYRRI
NKLIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTLHEKNTLGVVY
ERGMIGIYHDWCEAFSTYPRTYDFIHASGVFSLYKDRCDIEDILLEMDRI
LRPEGAIIIRDEVEVVVKVQKIVGGMRWDTKMTDHEDGPLVPEKILVAVK
QYWVMDDNNSTSPL*
Sequence Length: 
565
Sequence Checksum: 
c229f3b03235181f7c7106512d8e3206
View location in JBrowse: 
DCARv2_Chr9:31963454..31966820+
Organism: 
Daucus carota subspecies sativus
Relationship: 
There is 1 relationship.
Relationships
The polypeptide, DCAR_031025, derives from mRNA, DCAR_031025.
Blast Results: 
The following BLAST results are available for this feature:
BLAST of DCAR_031025 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Analysis Date: 2021-12-09
Analysis Name: DCAR peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 20
[Close]
BLAST of DCAR_031025 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5AHT0 (Methyltransferase {ECO:0000256|RuleBase:RU366043} (2.1.1.- {ECO:0000256|RuleBase:RU366043}))

HSP 1 Score: 1001.12 bits (2587), Expect = 0.000e+0
Identity = 471/570 (82.63%), Postives = 516/570 (90.53%), Query Frame = 0
 
Query:    1 MTKAGADCSVLPNLNFDTHHHSDSRTIDDSGSKVKIFQPCKARYTDHTPCQDQKRAMKFPRENMNYRERHCPPPEKKLRCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADRYIDQLASVIPIDNGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQAQVQFALERGVPAVIGVLGTIKMPYPSKAFDMAHCSRCLIPWGANDGIYMMEVDRVLRPGGYWVLSGPPINWKNNYRAWQRPKEDLEEEQRKIEDIAKLLCWEKKTEFGETAIWQKKLNTESCRA----SQANTCESSDPDNVWYKKMEACITPSTKSD--SEEGGAELKAFPERLYSAPPRIVSGSVPGISVETYLEDNKIWKKHVNAYRRINKLIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTLHEKNTLGVVYERGMIGIYHDWCEAFSTYPRTYDFIHASGVFSLYKDRCDIEDILLEMDRILRPEGAIIIRDEVEVVVKVQKIVGGMRWDTKMTDHEDGPLVPEKILVAVKQYWVMDDNNSTSPL 564
            MTK+GADC++LPNLNF+THH  ++  IDDS  KV +F+PC  RYTD TPCQDQKRAM FPRENM YRERHCPP  +KL CLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGAD YIDQLASVIPI+NGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQ+Q+QFALERGVPAVIGVLGTIKMPYPS+AFDMAHCSRCLIPWG NDG YMMEVDRVLRPGGYWVLSGPPINWKNNY+AWQRPKE+L+EEQRKIE+IAKLLCW+KK+E GE AIWQK ++ +SCRA    SQA  C+S D D+VWYKKMEACITP   S+  +E  G ELKAFP+RLY+ PPRI SGS+PG+SVETYLEDNK+WKKHVNAY++I K+IDSGRYRNIMDMNAGLG FAAALESPKLWVMNVVPT+ EKNTLGVVYERG+IGIYHDWCEAFSTYPRTYD IHA+GVFSLYKD+C+ EDILLEMDRILRPEGA+I RD V+ ++KV+KIVG MRWDTKM DHEDGPLVPEKILVAVKQYWV  + NSTS L
Sbjct:   77 MTKSGADCNILPNLNFETHHGGEAGAIDDSELKVNMFKPCDPRYTDFTPCQDQKRAMTFPRENMIYRERHCPPENQKLHCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADAYIDQLASVIPIENGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQSQIQFALERGVPAVIGVLGTIKMPYPSRAFDMAHCSRCLIPWGENDGKYMMEVDRVLRPGGYWVLSGPPINWKNNYKAWQRPKEELQEEQRKIEEIAKLLCWKKKSEKGEIAIWQKSIDADSCRATRDNSQATFCKSVDADDVWYKKMEACITPYPNSNRPAEVPGGELKAFPDRLYAVPPRIASGSLPGVSVETYLEDNKMWKKHVNAYKKIIKIIDSGRYRNIMDMNAGLGGFAAALESPKLWVMNVVPTIAEKNTLGVVYERGLIGIYHDWCEAFSTYPRTYDLIHANGVFSLYKDKCNFEDILLEMDRILRPEGAVIFRDNVDELIKVKKIVGRMRWDTKMVDHEDGPLVPEKILVAVKQYWVTGETNSTSSL 646
[Close]
BLAST of DCAR_031025 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B6YYI5 (Methyltransferase {ECO:0000256|RuleBase:RU366043} (2.1.1.- {ECO:0000256|RuleBase:RU366043}))

HSP 1 Score: 996.497 bits (2575), Expect = 0.000e+0
Identity = 464/568 (81.69%), Postives = 515/568 (90.67%), Query Frame = 0
 
Query:    1 MTKAGADCSVLPNLNFDTHHHSDSRTIDDSGSKVKIFQPCKARYTDHTPCQDQKRAMKFPRENMNYRERHCPPPEKKLRCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADRYIDQLASVIPIDNGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQAQVQFALERGVPAVIGVLGTIKMPYPSKAFDMAHCSRCLIPWGANDGIYMMEVDRVLRPGGYWVLSGPPINWKNNYRAWQRPKEDLEEEQRKIEDIAKLLCWEKKTEFGETAIWQKKLNTESCRASQANT----CESSDPDNVWYKKMEACITPSTKSD--SEEGGAELKAFPERLYSAPPRIVSGSVPGISVETYLEDNKIWKKHVNAYRRINKLIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTLHEKNTLGVVYERGMIGIYHDWCEAFSTYPRTYDFIHASGVFSLYKDRCDIEDILLEMDRILRPEGAIIIRDEVEVVVKVQKIVGGMRWDTKMTDHEDGPLVPEKILVAVKQYWVMDDNNSTS 562
            MTK+GADC +LPNLNF+THH  +S  IDDS  KVK+F+PC  RYTD+TPCQDQ+RAM FPRENM YRERHCPP  +KL CLIPAPKGYVTPFPWPKSRDYVP+ANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGAD YIDQLASVIPI+NGTVRTALDTGCGVASWGAYLWKR VIAMSFAPRDSH++Q+QFALERGVPAVIGVLGT+KMPYPS+AFDMAHCSRCLIPWGANDG YMMEVDRVLRPGGYWVLSGPPINWKNNY+AWQRPKE+L+EEQRKIE+IAKLLCWEKK+E GE AIWQK ++ +SCRA+Q N+    C+S+D D+VWYKKMEACITP   S+   E  G E K FP+RLY+ PPRI SGSVPG+SVET+LEDNK WKKHVNAY++  K+IDSGRYRNIMDMNAGLG FAAAL+SPKLWVMNVVPT+ EK TLGVVYERG+IGIYHDWCEAFSTYPRTYD IHA+GVFSLYKD+C+ EDILLEMDRILRPEGA+I RD+V+V++KV+KIVG MRWDTKM DHEDGPLVPEK+LVAVKQYWV  +NNSTS
Sbjct:   49 MTKSGADCDILPNLNFETHHGGESGVIDDSELKVKVFKPCHPRYTDYTPCQDQRRAMTFPRENMIYRERHCPPENEKLHCLIPAPKGYVTPFPWPKSRDYVPYANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADAYIDQLASVIPIENGTVRTALDTGCGVASWGAYLWKRNVIAMSFAPRDSHESQIQFALERGVPAVIGVLGTVKMPYPSRAFDMAHCSRCLIPWGANDGTYMMEVDRVLRPGGYWVLSGPPINWKNNYKAWQRPKEELQEEQRKIEEIAKLLCWEKKSEKGEIAIWQKSIDADSCRATQDNSQATFCKSADSDDVWYKKMEACITPYPNSNRPDEVPGGERKVFPDRLYAVPPRIASGSVPGVSVETFLEDNKTWKKHVNAYKKFIKIIDSGRYRNIMDMNAGLGGFAAALDSPKLWVMNVVPTIAEKKTLGVVYERGLIGIYHDWCEAFSTYPRTYDLIHANGVFSLYKDKCNFEDILLEMDRILRPEGAVIFRDDVDVLIKVKKIVGRMRWDTKMVDHEDGPLVPEKVLVAVKQYWVAGENNSTS 616
[Close]
BLAST of DCAR_031025 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B6YVZ5 (Methyltransferase {ECO:0000256|RuleBase:RU366043} (2.1.1.- {ECO:0000256|RuleBase:RU366043}))

HSP 1 Score: 993.416 bits (2567), Expect = 0.000e+0
Identity = 467/566 (82.51%), Postives = 510/566 (90.11%), Query Frame = 0
 
Query:    1 MTKAGADCSVLPNLNFDTHHHSDSRTIDDSGSKVKIFQPCKARYTDHTPCQDQKRAMKFPRENMNYRERHCPPPEKKLRCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADRYIDQLASVIPIDNGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQAQVQFALERGVPAVIGVLGTIKMPYPSKAFDMAHCSRCLIPWGANDGIYMMEVDRVLRPGGYWVLSGPPINWKNNYRAWQRPKEDLEEEQRKIEDIAKLLCWEKKTEFGETAIWQKKLNTESCRA----SQANTCESSDPDNVWYKKMEACITPSTKSDSEEGGAELKAFPERLYSAPPRIVSGSVPGISVETYLEDNKIWKKHVNAYRRINKLIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTLHEKNTLGVVYERGMIGIYHDWCEAFSTYPRTYDFIHASGVFSLYKDRCDIEDILLEMDRILRPEGAIIIRDEVEVVVKVQKIVGGMRWDTKMTDHEDGPLVPEKILVAVKQYWVMDDNNSTS 562
            MTK+GADC +LPNLNF+THH  +S  IDDS  KVK+F+PC  RYTD+TPCQDQ+RAM FPRENM YRERHCPP  +KL CLIPAPKGYVTPFPWPKSRDYVP+ANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGAD YIDQLASV+PI+NGT+RTALDTGCGVAS GAYLWKRKVIAMSFAPRDSH+AQVQFALERGVPAVIGVLGTIKMPYPS+AFDMAHCSRCLIPWGANDG+YM EVDRVLRPGGYWVLSGPPINWKNNY+AWQRPKE+L+EEQRKIE+IAKLLCWEKK E GE AIWQK  N++SC      SQA  C+ +D D+VWYKKME CITP   +     G ELKAFP+RLY+ PPRI SGSVPG+SVETYLEDNK WKKHVNAY+   K+IDSGRYRNIMDMNAGLG FAAALESPKLWVMNVVPT+ EKNTLGVVYERG+IGIYHDWCEAFSTYPRTYD IHA+GVFSLYKD+C+ EDILLEMDRILRPEGA+I RD+V+V++KV+KIVGGMRWDTKM DHEDGPLVPEKILVAVKQYWV  +NNSTS
Sbjct:   49 MTKSGADCDILPNLNFETHHGGESGVIDDSELKVKVFKPCHPRYTDYTPCQDQRRAMTFPRENMIYRERHCPPENEKLHCLIPAPKGYVTPFPWPKSRDYVPYANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADAYIDQLASVLPIENGTIRTALDTGCGVASLGAYLWKRKVIAMSFAPRDSHEAQVQFALERGVPAVIGVLGTIKMPYPSRAFDMAHCSRCLIPWGANDGMYMTEVDRVLRPGGYWVLSGPPINWKNNYKAWQRPKEELQEEQRKIEEIAKLLCWEKKYEKGEIAIWQKSRNSDSCHVMQDNSQATFCKPADADDVWYKKMEGCITPYPDTK----GGELKAFPDRLYAVPPRIASGSVPGVSVETYLEDNKKWKKHVNAYKNQIKIIDSGRYRNIMDMNAGLGGFAAALESPKLWVMNVVPTIAEKNTLGVVYERGLIGIYHDWCEAFSTYPRTYDLIHANGVFSLYKDKCNFEDILLEMDRILRPEGAVIFRDDVDVLIKVKKIVGGMRWDTKMVDHEDGPLVPEKILVAVKQYWVAGENNSTS 610
[Close]
BLAST of DCAR_031025 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A834YBY0 ((Uncharacterized protein {ECO:0000313|EMBL:KAF8378439.1}))

HSP 1 Score: 989.178 bits (2556), Expect = 0.000e+0
Identity = 458/562 (81.49%), Postives = 511/562 (90.93%), Query Frame = 0
 
Query:    7 DCSVLPNLNFDTHHHSDSRTIDDSGSKVKIFQPCKARYTDHTPCQDQKRAMKFPRENMNYRERHCPPPEKKLRCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADRYIDQLASVIPIDNGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQAQVQFALERGVPAVIGVLGTIKMPYPSKAFDMAHCSRCLIPWGANDGIYMMEVDRVLRPGGYWVLSGPPINWKNNYRAWQRPKEDLEEEQRKIEDIAKLLCWEKKTEFGETAIWQKKLNTESCRA----SQANTCESSDPDNVWYKKMEACIT--PSTKSDSEEGGAELKAFPERLYSAPPRIVSGSVPGISVETYLEDNKIWKKHVNAYRRINKLIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTLHEKNTLGVVYERGMIGIYHDWCEAFSTYPRTYDFIHASGVFSLYKDRCDIEDILLEMDRILRPEGAIIIRDEVEVVVKVQKIVGGMRWDTKMTDHEDGPLVPEKILVAVKQYWVMDDNNSTS 562
            DCS+L NLNF+THH  ++ TID S SK K+F+PC ARYTD+TPCQDQ RAM FPRENMNYRERHCPP E+KL CLIPAP+GYVTPFPWPKSRDYVP+ANAPYKSLTVEKA+QNWIQYEGNVFRFPGGGTQFPQGAD YI+QLASVIPI NGTVRTALDTGCGVASWGAYL KR VIAMSFAPRDSH+AQVQFALERGVPAVIGVLGTIK+PYPS+AFDMAHCSRCLIPWGANDG+YMMEVDRVLRPGGYWVLSGPPINWKNNY+AWQRPKE+L+EEQRKIE+IAKLLCWEKK E GE AIW+K++N +SCR     S+A+ CES++ ++VWYKKMEACIT  P   +  E  G ELKAFPERL + PPRI SGSVPG+SVETYLEDNK+WKKHV AY++ NK+IDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPT+ EKNTLGV+YERG+IGIYHDWCE FSTYPRTYD IHA+GVFSLY D+C+IEDILLEMDRILRPEGA++IRDEV+V++KV+KI+GGMRWDTKM DHEDGPLVPEKILVAV QYWV  + N+T+
Sbjct:   55 DCSILSNLNFETHHGGEAGTIDGSESKAKVFEPCDARYTDYTPCQDQMRAMTFPRENMNYRERHCPPEEEKLHCLIPAPRGYVTPFPWPKSRDYVPYANAPYKSLTVEKAVQNWIQYEGNVFRFPGGGTQFPQGADAYINQLASVIPIKNGTVRTALDTGCGVASWGAYLLKRNVIAMSFAPRDSHEAQVQFALERGVPAVIGVLGTIKLPYPSRAFDMAHCSRCLIPWGANDGMYMMEVDRVLRPGGYWVLSGPPINWKNNYKAWQRPKEELQEEQRKIEEIAKLLCWEKKHEKGEIAIWRKRVNADSCRGRQEDSRASMCESTNENDVWYKKMEACITPYPDVNNPDEVAGEELKAFPERLNAVPPRIASGSVPGVSVETYLEDNKLWKKHVKAYKKTNKIIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTIAEKNTLGVIYERGLIGIYHDWCEGFSTYPRTYDLIHANGVFSLYNDKCNIEDILLEMDRILRPEGAVMIRDEVDVLIKVKKIIGGMRWDTKMVDHEDGPLVPEKILVAVNQYWVAGEKNTTA 616
[Close]
BLAST of DCAR_031025 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B6YYH6 (Methyltransferase {ECO:0000256|RuleBase:RU366043} (2.1.1.- {ECO:0000256|RuleBase:RU366043}))

HSP 1 Score: 988.793 bits (2555), Expect = 0.000e+0
Identity = 461/568 (81.16%), Postives = 513/568 (90.32%), Query Frame = 0
 
Query:    1 MTKAGADCSVLPNLNFDTHHHSDSRTIDDSGSKVKIFQPCKARYTDHTPCQDQKRAMKFPRENMNYRERHCPPPEKKLRCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADRYIDQLASVIPIDNGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQAQVQFALERGVPAVIGVLGTIKMPYPSKAFDMAHCSRCLIPWGANDGIYMMEVDRVLRPGGYWVLSGPPINWKNNYRAWQRPKEDLEEEQRKIEDIAKLLCWEKKTEFGETAIWQKKLNTESCRASQANT----CESSDPDNVWYKKMEACITPSTKSD--SEEGGAELKAFPERLYSAPPRIVSGSVPGISVETYLEDNKIWKKHVNAYRRINKLIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTLHEKNTLGVVYERGMIGIYHDWCEAFSTYPRTYDFIHASGVFSLYKDRCDIEDILLEMDRILRPEGAIIIRDEVEVVVKVQKIVGGMRWDTKMTDHEDGPLVPEKILVAVKQYWVMDDNNSTS 562
            MT + ADCS+LPNLNF+THH  ++  I+DS  KV++F+PC  RYTD+TPCQDQ+RAM FPR NM YRERHCP   KKL CLIPAPKGYVTPFPWPKSRDYVP+ANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGAD YIDQLASVIPI+NGTVRTALDTGCGVASWGAYLWKR VIAMSFAPRDSH++Q+QFALERGVPAVIGVLGT+KMPYPS+AFDMAHCSRCLIPWGANDG YMMEVDRVLRPGGYWVLSGPPINWKNNY+AWQRPKE+L+EEQRKIE+IAKLLCWEKK+E GE AIWQK ++ +SCRA+Q N+    C+S+D D+VWYKKMEACITP   S+   E  G E K FP+RLY+ PPRI SGSVPG+SVET+LEDNK WKKHVNAY++  K+IDSGRYRNIMDMNAGLG FAAAL+SPKLWVMNVVPT+ EK TLGVVYERG+IGIYHDWCEAFSTYPRTYD IHA+GVFSLYKD+C+ EDILLEMDRILRPEGA+I RD+V+V++KV+KIVGGMRWDTKM DHEDGPLVPEKILVAVKQYWV  +NNSTS
Sbjct:   49 MTNSRADCSILPNLNFETHHIGEAGVINDSELKVEVFKPCHPRYTDYTPCQDQRRAMTFPRVNMIYRERHCPAETKKLYCLIPAPKGYVTPFPWPKSRDYVPYANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADAYIDQLASVIPIENGTVRTALDTGCGVASWGAYLWKRNVIAMSFAPRDSHESQIQFALERGVPAVIGVLGTVKMPYPSRAFDMAHCSRCLIPWGANDGTYMMEVDRVLRPGGYWVLSGPPINWKNNYKAWQRPKEELQEEQRKIEEIAKLLCWEKKSEKGEIAIWQKSIDADSCRATQDNSQATFCKSADSDDVWYKKMEACITPYPNSNRPDEVPGGERKVFPDRLYAVPPRIASGSVPGVSVETFLEDNKTWKKHVNAYKKFIKIIDSGRYRNIMDMNAGLGGFAAALDSPKLWVMNVVPTIAEKKTLGVVYERGLIGIYHDWCEAFSTYPRTYDLIHANGVFSLYKDKCNFEDILLEMDRILRPEGAVIFRDDVDVLIKVKKIVGGMRWDTKMVDHEDGPLVPEKILVAVKQYWVAGENNSTS 616
[Close]
BLAST of DCAR_031025 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A067KYA8 (Methyltransferase {ECO:0000256|RuleBase:RU366043} (2.1.1.- {ECO:0000256|RuleBase:RU366043}))

HSP 1 Score: 988.023 bits (2553), Expect = 0.000e+0
Identity = 459/568 (80.81%), Postives = 512/568 (90.14%), Query Frame = 0
 
Query:    1 MTKAGADCSVLPNLNFDTHHHSDSRTIDDSGSKVKIFQPCKARYTDHTPCQDQKRAMKFPRENMNYRERHCPPPEKKLRCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADRYIDQLASVIPIDNGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQAQVQFALERGVPAVIGVLGTIKMPYPSKAFDMAHCSRCLIPWGANDGIYMMEVDRVLRPGGYWVLSGPPINWKNNYRAWQRPKEDLEEEQRKIEDIAKLLCWEKKTEFGETAIWQKKLNTESCRA----SQANTCESSDPDNVWYKKMEACIT--PSTKSDSEEGGAELKAFPERLYSAPPRIVSGSVPGISVETYLEDNKIWKKHVNAYRRINKLIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTLHEKNTLGVVYERGMIGIYHDWCEAFSTYPRTYDFIHASGVFSLYKDRCDIEDILLEMDRILRPEGAIIIRDEVEVVVKVQKIVGGMRWDTKMTDHEDGPLVPEKILVAVKQYWVMDDNNSTS 562
            +TK   DC+++P+LNF+THH  +  +I+DS SK K+F+PCK RYTD+TPCQDQ+RAM FPRENM YRERHCPP  +KL CLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNW+QYEGNVFRFPGGGTQFPQGAD+YIDQLASVIPI NGTVRTALDTGCGVASWGAYLW R VIAMSFAPRDSH+AQVQFALERGVPAVIGVLGT+KMPYPS+AFDMAHCSRCLIPWG+NDG YM+EVDRVLRPGGYWVLSGPPINWKNNY+AWQRPKE+LEEEQRKIE+IAKLLCWEKK E GE AIWQK++N ESC +    SQ   C+S+DP++VWYKKME CIT  P   S  E  G ELKAFPERLY+ PPR+ SGS+PG+SVETY EDN  WKKHV AY++INKLIDSGRYRNIMDMNAGLG FAAALESPKLWVMNVVPT+ +K+TLGV+YERG+IGIYHDWCEAFSTYPRTYD IHA+GVFSLYKD+C+ EDILLEMDRILRPEGA+I RDEV+V++KV+KIVGGMRWDTKM DHEDGPLVPEKILVAVKQYWV D N+++S
Sbjct:   49 ITKNTGDCNLIPSLNFETHHGGEIESINDSESKPKVFKPCKPRYTDYTPCQDQRRAMTFPRENMIYRERHCPPEGEKLHCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWVQYEGNVFRFPGGGTQFPQGADKYIDQLASVIPIANGTVRTALDTGCGVASWGAYLWSRNVIAMSFAPRDSHEAQVQFALERGVPAVIGVLGTVKMPYPSRAFDMAHCSRCLIPWGSNDGTYMIEVDRVLRPGGYWVLSGPPINWKNNYKAWQRPKEELEEEQRKIEEIAKLLCWEKKYEKGEMAIWQKRVNAESCPSRQDDSQVTFCKSTDPNDVWYKKMETCITPYPEVSSRDEVAGGELKAFPERLYAIPPRVASGSIPGVSVETYQEDNNKWKKHVKAYKKINKLIDSGRYRNIMDMNAGLGGFAAALESPKLWVMNVVPTIADKSTLGVIYERGLIGIYHDWCEAFSTYPRTYDLIHANGVFSLYKDKCNTEDILLEMDRILRPEGAVIFRDEVDVLIKVRKIVGGMRWDTKMVDHEDGPLVPEKILVAVKQYWVADGNSTSS 616
[Close]
BLAST of DCAR_031025 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: M1A848 (Methyltransferase {ECO:0000256|RuleBase:RU366043} (2.1.1.- {ECO:0000256|RuleBase:RU366043}))

HSP 1 Score: 988.023 bits (2553), Expect = 0.000e+0
Identity = 455/566 (80.39%), Postives = 516/566 (91.17%), Query Frame = 0
 
Query:    1 MTKAGADCSVLPNLNFDTHHHSDSRTIDDSGSKVKIFQPCKARYTDHTPCQDQKRAMKFPRENMNYRERHCPPPEKKLRCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADRYIDQLASVIPIDNGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQAQVQFALERGVPAVIGVLGTIKMPYPSKAFDMAHCSRCLIPWGANDGIYMMEVDRVLRPGGYWVLSGPPINWKNNYRAWQRPKEDLEEEQRKIEDIAKLLCWEKKTEFGETAIWQKKLNTESCRASQ----ANTCESSDPDNVWYKKMEACITPSTKSDSEEGGAELKAFPERLYSAPPRIVSGSVPGISVETYLEDNKIWKKHVNAYRRINKLIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTLHEKNTLGVVYERGMIGIYHDWCEAFSTYPRTYDFIHASGVFSLYKDRCDIEDILLEMDRILRPEGAIIIRDEVEVVVKVQKIVGGMRWDTKMTDHEDGPLVPEKILVAVKQYWVMDDNNSTS 562
            +TK+G +C++LPNLNF+T H   + +IDDSG++VK F+PC+ RYTDHTPCQDQKRAM FPRENM YRERHCPPPEKKL CLIPAPKGYVTPFPWPKSRDYVP+ANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGAD+YIDQLASVIPI NGTVRTALDTGCGVASWGAYLWKR VIAMSFAPRDSH+AQVQFALERGVPAVIGVLGT+KMPYPS+AFDMAHCSRCLIPWGA DGI MMEVDRVLRPGGYWVLSGPPINWK NY+AWQRP EDL+EEQRKIE+IAKLLCWEKK+E GETAIWQK+++ +SCR++Q    A  C+S+DPD+VWY KME CITPS  +  +EG   L+ FPERL++ PPRI +G V G+SVE YLED+K WKKHV+AY++ NKLID+GRYRNIMDMN+GLG FAAAL+SPKLWVMNV+PT+ EKNTLGV+YERG+IGIYHDWCEAFSTYPRTYD IHA+G+FSLYKDRCD EDILLEMDRILRPEGA+I+RD+V+V++KV+KI+GGMRWD K+ DHEDGPLVP KILVAVKQYW ++DNNSTS
Sbjct:   48 VTKSGENCNILPNLNFETRHGGQAGSIDDSGTEVKKFKPCRPRYTDHTPCQDQKRAMHFPRENMIYRERHCPPPEKKLHCLIPAPKGYVTPFPWPKSRDYVPYANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADKYIDQLASVIPIQNGTVRTALDTGCGVASWGAYLWKRNVIAMSFAPRDSHEAQVQFALERGVPAVIGVLGTVKMPYPSRAFDMAHCSRCLIPWGAADGILMMEVDRVLRPGGYWVLSGPPINWKTNYKAWQRPMEDLQEEQRKIEEIAKLLCWEKKSEKGETAIWQKRMDADSCRSTQEDSEATLCKSTDPDDVWYNKMETCITPSKGNGDDEG---LRPFPERLFAVPPRIANGLVSGVSVEAYLEDSKKWKKHVSAYKKSNKLIDTGRYRNIMDMNSGLGGFAAALQSPKLWVMNVMPTIAEKNTLGVIYERGLIGIYHDWCEAFSTYPRTYDLIHANGLFSLYKDRCDFEDILLEMDRILRPEGAVILRDDVDVLIKVKKIIGGMRWDFKLMDHEDGPLVPVKILVAVKQYWTVEDNNSTS 610
[Close]
BLAST of DCAR_031025 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A835DG25 ((Uncharacterized protein {ECO:0000313|EMBL:KAF8399467.1}))

HSP 1 Score: 987.252 bits (2551), Expect = 0.000e+0
Identity = 452/562 (80.43%), Postives = 507/562 (90.21%), Query Frame = 0
 
Query:    7 DCSVLPNLNFDTHHHSDSRTIDDSGSKVKIFQPCKARYTDHTPCQDQKRAMKFPRENMNYRERHCPPPEKKLRCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADRYIDQLASVIPIDNGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQAQVQFALERGVPAVIGVLGTIKMPYPSKAFDMAHCSRCLIPWGANDGIYMMEVDRVLRPGGYWVLSGPPINWKNNYRAWQRPKEDLEEEQRKIEDIAKLLCWEKKTEFGETAIWQKKLNTESCRA----SQANTCESSDPDNVWYKKMEACIT--PSTKSDSEEGGAELKAFPERLYSAPPRIVSGSVPGISVETYLEDNKIWKKHVNAYRRINKLIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTLHEKNTLGVVYERGMIGIYHDWCEAFSTYPRTYDFIHASGVFSLYKDRCDIEDILLEMDRILRPEGAIIIRDEVEVVVKVQKIVGGMRWDTKMTDHEDGPLVPEKILVAVKQYWVMDDNNSTS 562
            DCS+L NLNF+THH  ++  I+DS SK +IF+PC ARYTD+TPC DQKRAM FPR NMNYRERHCPP E+KL CLIPAP GYVTPFPWPKS DYVP+ANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGAD YIDQLASVIPI NGTVRTALDTGCGVASWGAYL KR VIAMSFAPRDSH+AQVQFALERGVPAVIGVLGTIK+PYPS+AFDMAHCSRCLIPWG+NDG+YMMEVDRVLRPGGYWVLSGPPINWKNNY+AWQRPKE+L++EQRKIE+IA+LLCWEK  E GE AIW+K++N +SCR     S A  CES++ ++VWYK MEACIT  P   S  E  G ELKAFP+RL + PPRI SGS+PG+SVE+YLEDNK+WKKHV AY+RINK+IDSGRYRN+MDMNAGLGSFAAALESPKLWVMNVVPT+ EKNTLGV+YERG+IGIYHDWCEAFSTYPRTYD IHA+G+FSLYKD+C +EDILLEMDRILRPEGA+I RDEV+V++KV+KIVGGMRW+TKM DHEDGPLVPEK++VAVK+YWV+  NNSTS
Sbjct:  512 DCSILSNLNFETHHGGEAGAIEDSQSKSEIFEPCDARYTDYTPCHDQKRAMTFPRANMNYRERHCPPEEEKLHCLIPAPNGYVTPFPWPKSLDYVPYANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADAYIDQLASVIPIKNGTVRTALDTGCGVASWGAYLLKRNVIAMSFAPRDSHEAQVQFALERGVPAVIGVLGTIKLPYPSRAFDMAHCSRCLIPWGSNDGLYMMEVDRVLRPGGYWVLSGPPINWKNNYKAWQRPKEELQQEQRKIEEIAELLCWEKVHEKGEIAIWRKRVNADSCRGRQDESHAIMCESTNAEDVWYKNMEACITPYPDATSPDEVAGGELKAFPDRLNAVPPRIASGSIPGVSVESYLEDNKLWKKHVKAYKRINKIIDSGRYRNMMDMNAGLGSFAAALESPKLWVMNVVPTIAEKNTLGVIYERGLIGIYHDWCEAFSTYPRTYDLIHANGLFSLYKDKCKVEDILLEMDRILRPEGAVIFRDEVDVLIKVKKIVGGMRWNTKMVDHEDGPLVPEKVMVAVKKYWVVGGNNSTS 1073
[Close]
BLAST of DCAR_031025 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5APR6 (Methyltransferase {ECO:0000256|RuleBase:RU366043} (2.1.1.- {ECO:0000256|RuleBase:RU366043}))

HSP 1 Score: 985.326 bits (2546), Expect = 0.000e+0
Identity = 462/566 (81.63%), Postives = 508/566 (89.75%), Query Frame = 0
 
Query:    1 MTKAGADCSVLPNLNFDTHHHSDSRTIDDSGSKVKIFQPCKARYTDHTPCQDQKRAMKFPRENMNYRERHCPPPEKKLRCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADRYIDQLASVIPIDNGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQAQVQFALERGVPAVIGVLGTIKMPYPSKAFDMAHCSRCLIPWGANDGIYMMEVDRVLRPGGYWVLSGPPINWKNNYRAWQRPKEDLEEEQRKIEDIAKLLCWEKKTEFGETAIWQKKLNTESCRA----SQANTCESSDPDNVWYKKMEACITPSTKSDSEEGGAELKAFPERLYSAPPRIVSGSVPGISVETYLEDNKIWKKHVNAYRRINKLIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTLHEKNTLGVVYERGMIGIYHDWCEAFSTYPRTYDFIHASGVFSLYKDRCDIEDILLEMDRILRPEGAIIIRDEVEVVVKVQKIVGGMRWDTKMTDHEDGPLVPEKILVAVKQYWVMDDNNSTS 562
            M K+GA+CS+LPNLNF+THH   +  I DS  KV +F+PC  RY D+TPCQDQ+RAM FPRENM YRERHCPP  KKL CLIPAP GYVTPFPWPKSRDYVP+ANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGAD YIDQLASVIPI+NGTVRTALDTGCGVASWGAYLWKR VIAMSFAPRDSH+AQVQFALERGVPAVIGVLGTIKMPYPS+AFDMAHCSRCLIPWGANDG+YM EVDRVLRPGGYWVLSGPPINWKNNY+AWQRPKE+L+EEQRKIE+IA+LLCWEKK+E GE AIWQK+ N +SCRA    SQA  C+S+D D+VWYKKMEACITP    D+     ELKAFP+RLY+ PPRI+SG VPG+SVETYLEDNK WKKHVNAY+ + K+IDSGRYRNIMDMNAGLG FAAALESPKLWVMNVVPT+ EK+TLGVVYERG+IGIYHDWCE FSTYPRTYD IHA+GVFSLYKD+C+ EDILLEMDRILRPEGA+I RD V+V++KV+KIVGGMRWDTKM DHEDGPL PEKIL+AVKQYWV  +NNSTS
Sbjct:   49 MMKSGAECSILPNLNFETHHSGVAGVIADSELKVNVFKPCHPRYADYTPCQDQRRAMTFPRENMIYRERHCPPETKKLHCLIPAPIGYVTPFPWPKSRDYVPYANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADAYIDQLASVIPIENGTVRTALDTGCGVASWGAYLWKRNVIAMSFAPRDSHEAQVQFALERGVPAVIGVLGTIKMPYPSRAFDMAHCSRCLIPWGANDGMYMQEVDRVLRPGGYWVLSGPPINWKNNYKAWQRPKEELQEEQRKIEEIARLLCWEKKSEKGEIAIWQKRRNADSCRARPNNSQATFCKSADVDDVWYKKMEACITPY--PDTNRRDEELKAFPDRLYAVPPRIISGLVPGVSVETYLEDNKKWKKHVNAYKNLIKIIDSGRYRNIMDMNAGLGGFAAALESPKLWVMNVVPTIAEKDTLGVVYERGLIGIYHDWCEGFSTYPRTYDLIHANGVFSLYKDKCNFEDILLEMDRILRPEGAVIFRDNVDVLIKVKKIVGGMRWDTKMMDHEDGPLTPEKILIAVKQYWVAGENNSTS 612
[Close]
BLAST of DCAR_031025 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6P4AE65 (Methyltransferase {ECO:0000256|RuleBase:RU366043} (2.1.1.- {ECO:0000256|RuleBase:RU366043}))

HSP 1 Score: 985.326 bits (2546), Expect = 0.000e+0
Identity = 450/566 (79.51%), Postives = 516/566 (91.17%), Query Frame = 0
 
Query:    1 MTKAGADCSVLPNLNFDTHHHSDSRTIDDSGSKVKIFQPCKARYTDHTPCQDQKRAMKFPRENMNYRERHCPPPEKKLRCLIPAPKGYVTPFPWPKSRDYVPFANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADRYIDQLASVIPIDNGTVRTALDTGCGVASWGAYLWKRKVIAMSFAPRDSHQAQVQFALERGVPAVIGVLGTIKMPYPSKAFDMAHCSRCLIPWGANDGIYMMEVDRVLRPGGYWVLSGPPINWKNNYRAWQRPKEDLEEEQRKIEDIAKLLCWEKKTEFGETAIWQKKLNTESCR--ASQANTCESSDPDNVWYKKMEACIT--PSTKSDSEEGGAELKAFPERLYSAPPRIVSGSVPGISVETYLEDNKIWKKHVNAYRRINKLIDSGRYRNIMDMNAGLGSFAAALESPKLWVMNVVPTLHEKNTLGVVYERGMIGIYHDWCEAFSTYPRTYDFIHASGVFSLYKDRCDIEDILLEMDRILRPEGAIIIRDEVEVVVKVQKIVGGMRWDTKMTDHEDGPLVPEKILVAVKQYWVMDDNNSTS 562
            +TK+GADC+++PNL+FDTHH  D+ +I +S  + K+F+PCKA+YTD+TPCQDQ+RAM FPRENM YRERHCPP E+KL CLIPAPKGYVTPFPWPKSRDYVP+ANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGAD+YIDQLASVIPI NGTVRTALDTGCGVASWGAYL  R VI MSFAPRDSH+AQVQFALERGVPAVIGVLGTIK+PYPS+AFDMAHCSRCLIPWG NDG Y+MEVDRVLRPGGYWVLSGPPINW+ NY+AWQR KE+L+EEQRKIE+IAKLLCWEKK+E GE A+WQK++N +SCR   SQAN C+S+DPD+VWYKKME+CIT  P+  +  E  G +LK FP+RLY+ PPRI SGSVPG+S ETY EDN+ WKKHVNAY++IN+L+DSGRYRNIMDMNAGLG FAAAL+SPKLWVMNV+PT+ EKNTLGV+YERG+IGIYHDWCEAFSTYPRTYD IHA+GVFSLYKD+C++EDILLEMDRILRPEGA+I RDEV+V++KV+K VGGMRWDTKM DHEDGPLVPEKILVAVKQYW +D N++++
Sbjct:   48 ITKSGADCNIVPNLSFDTHHGGDTGSITESELETKVFEPCKAKYTDYTPCQDQRRAMTFPRENMYYRERHCPPEEEKLHCLIPAPKGYVTPFPWPKSRDYVPYANAPYKSLTVEKAIQNWIQYEGNVFRFPGGGTQFPQGADKYIDQLASVIPIRNGTVRTALDTGCGVASWGAYLMSRNVITMSFAPRDSHEAQVQFALERGVPAVIGVLGTIKLPYPSRAFDMAHCSRCLIPWGGNDGTYLMEVDRVLRPGGYWVLSGPPINWRTNYKAWQRSKEELQEEQRKIEEIAKLLCWEKKSEKGEIAVWQKRVNADSCRRDGSQANFCKSADPDDVWYKKMESCITPFPAANTPDEVAGGQLKPFPKRLYAIPPRIASGSVPGVSTETYEEDNQTWKKHVNAYKKINRLLDSGRYRNIMDMNAGLGGFAAALQSPKLWVMNVMPTIAEKNTLGVIYERGLIGIYHDWCEAFSTYPRTYDLIHANGVFSLYKDKCNMEDILLEMDRILRPEGAVIFRDEVDVLIKVKKTVGGMRWDTKMVDHEDGPLVPEKILVAVKQYWTVDGNSTST 613
Match NameStatsDescription
A0A5J5AHT0E-Value: 0.000e+0, PID: 82.63Methyltransferase {ECO:0000256|RuleBase:RU366043} ... [more]
A0A5B6YYI5E-Value: 0.000e+0, PID: 81.69Methyltransferase {ECO:0000256|RuleBase:RU366043} ... [more]
A0A5B6YVZ5E-Value: 0.000e+0, PID: 82.51Methyltransferase {ECO:0000256|RuleBase:RU366043} ... [more]
A0A834YBY0E-Value: 0.000e+0, PID: 81.49(Uncharacterized protein {ECO:0000313|EMBL:KAF8378... [more]
A0A5B6YYH6E-Value: 0.000e+0, PID: 81.16Methyltransferase {ECO:0000256|RuleBase:RU366043} ... [more]
A0A067KYA8E-Value: 0.000e+0, PID: 80.81Methyltransferase {ECO:0000256|RuleBase:RU366043} ... [more]
M1A848E-Value: 0.000e+0, PID: 80.39Methyltransferase {ECO:0000256|RuleBase:RU366043} ... [more]
A0A835DG25E-Value: 0.000e+0, PID: 80.43(Uncharacterized protein {ECO:0000313|EMBL:KAF8399... [more]
A0A5J5APR6E-Value: 0.000e+0, PID: 81.63Methyltransferase {ECO:0000256|RuleBase:RU366043} ... [more]
A0A6P4AE65E-Value: 0.000e+0, PID: 79.51Methyltransferase {ECO:0000256|RuleBase:RU366043} ... [more]

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Analysis: 
NameDescription
Carrot Genome Assembly DCARv2

An orange, doubled-haploid, Nantes-type carrot (DH1) was used for genome sequencing. We used BAC end sequences and a newly developed linkage map with 2,075 markers to correct 135 scaffolds with one or more chimeric regions. The resulting v2.0 assembly spans 421.5 Mb and contains 4,907 scaffolds (N50 of 12.7 Mb), accounting for ∼90% of the estimated genome size of 473 Mb. The scaftig N50 of 31.2 kb is similar to those of other high-quality genome assemblies such as potato and pepper. About 86% (362 Mb) of the assembled genome is included in only 60 superscaffolds anchored to the nine pseudomolecules. The longest superscaffold spans 30.2 Mb, 85% of chromosome 4.

There are a few different naming schemes for this assembly. First there is the
Authors' original naming scheme: Sequences with DCARv2 prefix are the original assembly as submitted to NCBI. These are labelled DCARv2_Chr1 through DCARv2_Chr9 for the chromosome pseudomolecules, DCARv2_MT and DCARv2_PT for the organellar assemblies, DCARv2_B1 and up for unincorporated superscaffolds, DCARv2_S26.1 and up for unincorporated scaffolds, and DCARv2_C10542132 and up for unincorporated contigs. A file with sequences using this naming scheme can be downloaded from the File: link below.
These sequences can be viewed in JBrowse here.

Phytozome genome ID 388: The authors' sequences and gene predictions were also submitted to Phytozome, and can be accessed at this address: https://phytozome-next.jgi.doe.gov/info/Dcarota_v2_0

LNRQ01: These sequences were then assigned GenBank accession numbers starting at LNRQ01000001.1 which corresponds to DCARv2_Chr1, up to LNRQ01004826.1 which corresponds to an unincorporated contig, DCARv2_C10750146. These reside in bioproject PRJNA268187, which is a subproject of umbrella project PRJNA285926.

Assembly GCA_001625215.1: The genome assembly was later defined an accession number GCA_001625215.1 for assembly ASM162521v1 which consists of only the 9 chromosome sequences and the plastid assembly, which have accession numbers from CM004278.1 to CM004286.1 for the chromosomes and CM004358.1 for the plastid. The mitochondrial genome was not included because it is classified as an incomplete sequence.

RefSeq: The assembly was then later added to RefSeq, and there another new set of identifiers was defined from NC_030381.1 to NC_030389.1 for the chromosomes, and from NW_016089425.1 to NW_016094239.1 for unincorporated scaffolds and contigs. These reside in bioproject PRJNA326436. Note that NCBI substituted different assembled organellar genomes from different genotypes for the RefSeq records.

The NCBI Sequence report lists the correspondences between the various naming methods

Link to the LNRQ01000000.1 master record at NCBI

Raw Reads: Link to SRA accessions used for the genome assembly

This genome is available in the CarrotOmics Blast Search
DCAR peptide blastp to SwissProt and TrEMBL without DCAR

This analysis is a blastp search of all of the DCAR V1.0 Gene Prediction polypeptide sequences against combined ExPASy SwissProt and TrEMBL databases from Nov. 17, 2021. Prior to performing the blast search, the database was filtered to remove organisms not in the Viridiplantae, and also filtered to remove these same DCAR gene predictions.
DCAR V1.0 Gene Prediction

For gene model prediction, mobile element–related repeats were masked using RepeatMasker. De novo prediction using AUGUSTUS v2.5.5, GENSCAN v.1.1.0, and GlimmerHMM-3.0.1 was trained using model species A. thaliana and S. lycoperisum training sets. The protein sequences of S. lycoperisum, Solanum tuberosum, A. thaliana, Brassica rapa, and Oryza sativa were mapped to the carrot genome using TBLASTN (BLAST All 2.2.23) and analyzed with GeneWise version 2.2.0. Carrot ESTs were aligned to the genome using BLAT and analyzed with PASA to detect spliced gene models. RNA-seq reads from 20 DH1 libraries were aligned with TopHat 2.0.9. Transcripts were predicted by Cufflinks. All gene models produced by de novo prediction, protein homology searches, and prediction and transcript-based evidence were integrated using GLEAN v1.1. Putative gene functions were assigned using the best BLASTP match to SwissProt and TrEMBL databases. Gene motifs and domains were determined with InterProScan version 4.7 against the ProDom, PRINTS, Pfam, SMART, PANTHER, and PROSITE protein databases. GO IDs for each gene were obtained from the corresponding InterPro entries. All genes were aligned against KEGG (release 58) proteins.

Data from this analysis can be viewed in JBrowse here.