Resource Type:
Polypeptide
Name:
DCAR_015732
Identifier:
DCAR_015732.mRNA-protein
Sequence:
MMKFLFVHHIHGLQISYFMTLLISVKYRETIYSRVQCSATVTTVLDTPSL
EAHSNSVAANRSWSESTSNAVLDLEKLHLASLEVHSNSVATDRPWTHISD
MDPPSEATLPMENLLTSEEAVIAAAASEAVALARAAAKSAKDAAMINSHK
NSTKIDVKPTALTYEAVDSLSERPELTQLGVAGVSQISQSEGRSDVEEPT
VEELQILQEELGKSIAVRSSRQPERKARRARAAEKASATVVSVKSGSMSK
KKRASQEIDHSDPLRYLRQTTSSSKLLTATEEQELSEGIQALLRLEKIYK
ELSERYGGEPSFIQWASAAGVDQITLRRQINYGKFCKDKMIKSNVRLVIS
IAKNYLKSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAV
RKFLSDQSRTIRLPIYMVEAGYRVKEARQNLYNKNGRQASHEELAEATGL
TMSRLSNVLLAPKPPRSLDQKIGFDLDLKPSDVIADPEAETSEELLIKEL
MRQDLNKVLDTLKPREKQVVRWRFGLDDGRMKTLQEIGEIMGVSRERIRQ
IELCAFRKLKNKRRTKSLQQYIIG*
Sequence Length:
575
Sequence Checksum:
9696f84fc6ed6ac0d1af6b4bc30dc03f
View location in JBrowse:
Organism:
Relationship:
| Relationships |
|---|
| The polypeptide, DCAR_015732, derives from mRNA, DCAR_015732. |
Blast Results:
The following BLAST results are available for this feature:
BLAST of DCAR_015732 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_015732 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6P4B029 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 660.603 bits (1703), Expect = 0.000e+0
Identity = 356/533 (66.79%), Postives = 424/533 (79.55%), Query Frame = 0
Match: A0A6P4B029 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 660.603 bits (1703), Expect = 0.000e+0
Identity = 356/533 (66.79%), Postives = 424/533 (79.55%), Query Frame = 0
Query: 64 SESTSNA---VLDLEKLHLASLEVHSNSVATDRPWTHISDMDPPS----EATLPMENLLTSEEAVIAAAASEAVALARAAAKSAKDAAMINSHKNSTKIDVKPTALTYEAVDSLS-------ERPELTQLGVAGVSQISQSEGRS--------DVEEPTVEELQILQEELGKSIAVRSSRQPERKARRARAAEKASATVVSVKSGSMSKKKRAS-QEIDHSDPLRYLRQTTSSSKLLTATEEQELSEGIQALLRLEKIYKELSERYGGEPSFIQWASAAGVDQITLRRQINYGKFCKDKMIKSNVRLVISIAKNYLKSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLPIYMVEAGYRVKEARQNLYNKNGRQASHEELAEATGLTMSRLSNVLLAPKPPRSLDQKIGFDLDLKPSDVIADPEAETSEELLIKELMRQDLNKVLDTLKPREKQVVRWRFGLDDGRMKTLQEIGEIMGVSRERIRQIELCAFRKLKNKRRTKSLQQYII 573
S STS A VL+LEKL L SL+ +S+SV +RPWT+ + PP+ EATL E LLTSEEAVIAAAA+EAV LA+AA K AKDA ++ ++ T+ + T+L D+L + + +LG + + +Q + S D EPT EEL++LQ +L IAVRS RQ ERKARR RAAEKA+ATVVSVKSGS +KKRAS Q+IDHSDPLRYLR TTS+S+LLTATEE ELSEGIQ LL+LEK+ +EL+ER G +P+F QWA+AAGVDQ TLRR+INYG CKDKMIKSN+RLVISIAKNY +GMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRK LSDQSRTIRLP +MVEA YRVKEAR+ LY+KNGR EE+AEATGL+M RL+ VLL PK PRSL+QKIG + +LKPS+VIADP+AETSE++LI++ M+QDL+KVLD+L PREKQV+RWRFG++DGRMKTLQEIGE+MGVSRERIRQIE CAFRKLKNK+RTK LQQY++
Sbjct: 42 SPSTSMATTTVLNLEKLRLPSLDANSDSVTANRPWTYTGAIGPPAKANLEATLATETLLTSEEAVIAAAAAEAVTLAKAAVKVAKDATLLINNNPCTR--AESTSLFSPEDDALHLKWPQHMKTGQPVRLGDSMGPKTAQLDDYSMQCAIKEADDLEPTHEELELLQSQLSNGIAVRSRRQTERKARRTRAAEKAAATVVSVKSGSTVRKKRASLQDIDHSDPLRYLRATTSTSRLLTATEEIELSEGIQDLLKLEKLQEELTERCGSQPTFAQWAAAAGVDQKTLRRRINYGILCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSKNGRHPDDEEVAEATGLSMKRLAAVLLTPKAPRSLEQKIGINQNLKPSEVIADPDAETSEDVLIRKFMKQDLDKVLDSLNPREKQVIRWRFGMEDGRMKTLQEIGELMGVSRERIRQIESCAFRKLKNKKRTKHLQQYLV 572
BLAST of DCAR_015732 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B6ZZE0 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 659.448 bits (1700), Expect = 0.000e+0
Identity = 386/569 (67.84%), Postives = 440/569 (77.33%), Query Frame = 0
Match: A0A5B6ZZE0 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 659.448 bits (1700), Expect = 0.000e+0
Identity = 386/569 (67.84%), Postives = 440/569 (77.33%), Query Frame = 0
Query: 24 SVKYRETIYSRVQCSATVTTVLDTPSLEAHSNSVAANRSWSESTSNAVLDLEKLHLASLEVHSNSVATDRPWTHISDMDPPSEA----TLPMENLLTSEEAVIAAAASEAVALARAAAKSAKDAAMINSHKNSTKIDVKPTALTYEAVDSLSERPELT---QLGVAGVSQISQSEGR-----------SDVEEPTVEELQILQEELGKSIAVRSSRQPERKARRARAAEKASATVVSVKSGSMSKKKRAS-QEIDHSDPLRYLRQTTSSSKLLTATEEQELSEGIQALLRLEKIYKELSERYGGEPSFIQWASAAGVDQITLRRQINYGKFCKDKMIKSNVRLVISIAKNYLKSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLPIYMVEAGYRVKEARQNLYNKNGRQASHEELAEATGLTMSRLSNVLLAPKPPRSLDQKIGFDLDLKPSDVIADPEAETSEELLIKELMRQDLNKVLDTLKPREKQVVRWRFGLDDGRMKTLQEIGEIMGVSRERIRQIELCAFRKLKNKRRTKSLQQYII 573
S K RE +Y R QC +L T S S S A + VLDLEKL L SLE HSNSVA RPWT+I + PP EA TL E LLTSEEAVIAAAA+EAVALA+AA K AKD AM+ STK D KP ++ EA ER +LT Q+GV G S +++ R SD EPT EEL++LQ +L SIAVRS RQ ERKA+R RAAEKA+A VVSVKSG S+K+RAS Q++D+SDPLRYLR TTS+S+LLT TEE ELSEGIQ LL+LEK++ EL+ER GGE +F QWA+AAGVDQ TLR+++NYG CKDKMIKSNVRLVISIAKNY +GMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRK LSDQSRTIRLP +MVEA YRVKEAR+ LY++NGR +EE+AEATGL+M RL+ VLLAPK PRSLDQKIG + DLKPSDVIADP+AET E+LLIK+ M+QDL KVLDTL PREKQVVRWRFGL+DGRMKTLQEIGE+MGVSRERIRQIE CAFRKLKNK+RTK LQQY+I
Sbjct: 29 SSKSREPVYFRTQC------ILSTAS---PSTSAA---------TTTVLDLEKLQLPSLESHSNSVAVGRPWTYIGAVGPPMEANFKATLATETLLTSEEAVIAAAAAEAVALAKAAVKVAKDVAMMVRDNYSTKSDSKPAIISSEADTFQFERAQLTPTGQVGVIGESLRAETGIREFYSSQLPIKESDDLEPTHEELELLQAQLSNSIAVRSRRQTERKAKRTRAAEKAAANVVSVKSGYTSRKRRASLQDVDYSDPLRYLRSTTSTSRLLTTTEEHELSEGIQDLLKLEKLHDELTERCGGETTFTQWAAAAGVDQKTLRKRLNYGILCKDKMIKSNVRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPDNEEVAEATGLSMKRLTAVLLAPKAPRSLDQKIGINQDLKPSDVIADPDAETLEDLLIKQFMKQDLEKVLDTLNPREKQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESCAFRKLKNKKRTKHLQQYLI 579
BLAST of DCAR_015732 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B6ZYY3 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 659.062 bits (1699), Expect = 0.000e+0
Identity = 385/569 (67.66%), Postives = 440/569 (77.33%), Query Frame = 0
Match: A0A5B6ZYY3 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 659.062 bits (1699), Expect = 0.000e+0
Identity = 385/569 (67.66%), Postives = 440/569 (77.33%), Query Frame = 0
Query: 24 SVKYRETIYSRVQCSATVTTVLDTPSLEAHSNSVAANRSWSESTSNAVLDLEKLHLASLEVHSNSVATDRPWTHISDMDPPSEA----TLPMENLLTSEEAVIAAAASEAVALARAAAKSAKDAAMINSHKNSTKIDVKPTALTYEAVDSLSERPELT---QLGVAGVSQISQSEGR-----------SDVEEPTVEELQILQEELGKSIAVRSSRQPERKARRARAAEKASATVVSVKSGSMSKKKRAS-QEIDHSDPLRYLRQTTSSSKLLTATEEQELSEGIQALLRLEKIYKELSERYGGEPSFIQWASAAGVDQITLRRQINYGKFCKDKMIKSNVRLVISIAKNYLKSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLPIYMVEAGYRVKEARQNLYNKNGRQASHEELAEATGLTMSRLSNVLLAPKPPRSLDQKIGFDLDLKPSDVIADPEAETSEELLIKELMRQDLNKVLDTLKPREKQVVRWRFGLDDGRMKTLQEIGEIMGVSRERIRQIELCAFRKLKNKRRTKSLQQYII 573
S K RE +Y R QC +L T S S S A + VLDLEKL L SLE HSNSVA RPWT+I + PP EA TL E LLTSEEAVIAAAA+EAVALA+AA K AKD AM+ STK D KP ++ EA ER +LT Q+GV G S +++ R SD EPT EEL++LQ +L SIAVRS RQ ERKA+R RAAEKA+A VVSVKSG S+K+RAS Q++D+SDPLRYLR TTS+S+LLT TEE ELSEGIQ LL+LEK++ EL+ER GGE +F QWA+AAGVDQ TLR+++NYG CKDKMIKSNVRLVISIAKNY +GMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLP +MVEA YRVKEAR+ LY++NGR ++EE+AEATGL+M RL+ VLL PK PRSLDQKIG + +LKPS+VIADP+AETSE+LLIK M+QDL KVLDTL PREKQV+RWRFGL DGRMKTLQEIGE+MGVSRERIRQIE CAFRKLKNKRRTK LQQY+I
Sbjct: 29 SSKSREPVYFRTQC------ILSTAS---PSTSAA---------TTTVLDLEKLQLPSLESHSNSVAVGRPWTYIGAVGPPMEANFKATLATETLLTSEEAVIAAAAAEAVALAKAAVKVAKDVAMMVRDNYSTKSDSKPAIISSEADTFQFERAQLTPTGQVGVIGESLRAETGIREFYSSQLPIKESDDLEPTHEELELLQAQLSNSIAVRSRRQTERKAKRTRAAEKAAANVVSVKSGYTSRKRRASLQDVDYSDPLRYLRSTTSTSRLLTTTEEHELSEGIQDLLKLEKLHDELTERCGGETTFTQWAAAAGVDQKTLRKRLNYGILCKDKMIKSNVRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMRRLTAVLLTPKAPRSLDQKIGINQNLKPSEVIADPDAETSEDLLIKLFMKQDLEKVLDTLNPREKQVIRWRFGLQDGRMKTLQEIGELMGVSRERIRQIESCAFRKLKNKRRTKHLQQYLI 579
BLAST of DCAR_015732 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6N2BUR2 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 655.981 bits (1691), Expect = 0.000e+0
Identity = 362/581 (62.31%), Postives = 434/581 (74.70%), Query Frame = 0
Match: A0A6N2BUR2 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 655.981 bits (1691), Expect = 0.000e+0
Identity = 362/581 (62.31%), Postives = 434/581 (74.70%), Query Frame = 0
Query: 26 KYRETIYSRVQCSATVTTV--------------LDTPSLEAHSNSVAANRSWSE--STSNAVLDLEKLHLASLEVHSNSVATDRPWTHISDMDPPSEATLPMENLLTSEEAVIAAAASEAVALARAAAKSAKDAAMINSHKNSTKIDVKPTALTYEAVDSLSERPELTQ----LGVAGVSQISQSEGR-------------SDVEEPTVEELQILQEELGKSIAVRSSRQPERKARRARAAEKASATVVSVKSGSMSKKKRAS-QEIDHSDPLRYLRQTTSSSKLLTATEEQELSEGIQALLRLEKIYKELSERYGGEPSFIQWASAAGVDQITLRRQINYGKFCKDKMIKSNVRLVISIAKNYLKSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLPIYMVEAGYRVKEARQNLYNKNGRQASHEELAEATGLTMSRLSNVLLAPKPPRSLDQKIGFDLDLKPSDVIADPEAETSEELLIKELMRQDLNKVLDTLKPREKQVVRWRFGLDDGRMKTLQEIGEIMGVSRERIRQIELCAFRKLKNKRRTKSLQQYI 572
K R+ I+ R QC + T+ L PS+E SNSVAA RSW + + V D++KL L S E + +SVA DRPWT+ + PP+EA E+ L SEEA++AAAA+EAVALA+AA K A+DA M+ + N D EA + E L Q GV ++++ SE + SD EP+ EEL+ILQ +L IAV+S+RQ ERKARRA+A ++A+A VVSVKSGS S+KKRAS Q++D+SDPLRYLR TT SS+LLTA+EEQELS GIQ LL+LE++ EL+ER GG+P+F QWA+AAGVDQ+TLR+++NYG CKDKMIKSNVRLVISIAKNY GMNLQDLVQEGCRGLVRGAEKFDA+KGFKFSTYAHWWIKQAVRK LSDQSRTIRLP +MVEA YRVKEAR+ L +NGR + E+AEATGL+M RL+ V+L PK PRSLDQKIGF+ LKPS+V+ADP+AETSEE+L K+ MRQDL KVLDTL PREKQVVRWRFGL+DGRMKTLQEIGE+MGVSRERIRQIE CAFRKLKNK+RTK LQQYI
Sbjct: 31 KSRDNIHLRTQCILSTTSAVTSTATSTVLGIEKLQLPSIEILSNSVAAERSWKSPSAATTTVPDIQKLKLPSFEANPDSVAPDRPWTYTGAVGPPAEANTKPEDSLASEEAIVAAAAAEAVALAKAALKGAQDAVMLVGYNNLKDSDNVGRGTLSEARTAPFESVHLAQPGETRGVGVYAELNGSEMKWTGSSLFRDTLTDSDDLEPSHEELEILQSQLSNVIAVKSNRQNERKARRAKAVQRAAANVVSVKSGSTSRKKRASVQDVDYSDPLRYLRGTTCSSRLLTASEEQELSRGIQDLLKLERLQVELTERCGGQPTFTQWAAAAGVDQMTLRKRLNYGILCKDKMIKSNVRLVISIAKNYQGVGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLLTENGRHPNDAEVAEATGLSMKRLAAVMLTPKAPRSLDQKIGFNESLKPSEVLADPDAETSEEILTKQFMRQDLEKVLDTLNPREKQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESCAFRKLKNKKRTKFLQQYI 611
BLAST of DCAR_015732 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: M1D2M3 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 655.981 bits (1691), Expect = 0.000e+0
Identity = 361/581 (62.13%), Postives = 432/581 (74.35%), Query Frame = 0
Match: M1D2M3 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 655.981 bits (1691), Expect = 0.000e+0
Identity = 361/581 (62.13%), Postives = 432/581 (74.35%), Query Frame = 0
Query: 26 KYRETIYSRVQCSATVTTV--------------LDTPSLEAHSNSVAANRSWSE--STSNAVLDLEKLHLASLEVHSNSVATDRPWTHISDMDPPSEATLPMENLLTSEEAVIAAAASEAVALARAAAKSAKDAAMINSHKNSTKIDVKPTALTYEAVDSLSERPELTQLG----VAGVSQISQSEGR-------------SDVEEPTVEELQILQEELGKSIAVRSSRQPERKARRARAAEKASATVVSVKSGSMSKKKRAS-QEIDHSDPLRYLRQTTSSSKLLTATEEQELSEGIQALLRLEKIYKELSERYGGEPSFIQWASAAGVDQITLRRQINYGKFCKDKMIKSNVRLVISIAKNYLKSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLPIYMVEAGYRVKEARQNLYNKNGRQASHEELAEATGLTMSRLSNVLLAPKPPRSLDQKIGFDLDLKPSDVIADPEAETSEELLIKELMRQDLNKVLDTLKPREKQVVRWRFGLDDGRMKTLQEIGEIMGVSRERIRQIELCAFRKLKNKRRTKSLQQYI 572
K R+ I+ R QC + T+ L PS+E SNSVAA RSW + + V D++KL L S E + +SVA DRPWT+ + PP+EA EN L SEEA++AAAA+EAVALA+AA K A+DA M+ + N D EA + E L Q G V ++++ SE + SD EP+ EEL+ILQ +L IAV+S+RQ ERKA+RA++ EKA+A VV+VKSGS S+KKRAS Q++D+SDPLRYLR TT SS+LLTA+EEQELS GIQ LL+LE++ EL+ER GG+P+F QWA+AAGVDQ+TLR+++NYG CKDKMIKSNVRLVISIAKNY GMNLQDLVQEGCRGLVRGAEKFDA+KGFKFSTYAHWWIKQAVRK LSDQSR IRLP +MVEA YRVKEAR+ L +NGR + E+AEA GL+M RL+ V+L PK PRSLDQKIGF+ LKPS+V+ADPEAETSEE+L K+ MRQDL KVLDTL PREKQVVRWRFGL+DGRMKTLQEIGE+MGVSRERIRQIE CAFRKLKNK+RTK LQQYI
Sbjct: 31 KSRDHIHLRTQCILSTTSAVTSTATSTVLGIEKLQLPSIEILSNSVAAERSWKSPSAATTTVPDIQKLKLPSFEANPDSVAPDRPWTYTGAVGPPAEANTKPENSLASEEAIVAAAAAEAVALAKAALKGAQDAVMLVGYNNLNDSDNVGRGTLSEARTAPFESVHLAQPGETRRVGVCAELNGSEMKWTGSSLFRETLTDSDDLEPSPEELEILQSQLSNVIAVKSNRQTERKAKRAKSVEKAAANVVTVKSGSTSRKKRASVQDVDYSDPLRYLRGTTCSSRLLTASEEQELSRGIQDLLKLERLQVELTERCGGQPTFTQWAAAAGVDQMTLRKRLNYGILCKDKMIKSNVRLVISIAKNYQGVGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLLTENGRHPNDAEVAEAAGLSMKRLAAVMLTPKAPRSLDQKIGFNESLKPSEVLADPEAETSEEILTKQFMRQDLEKVLDTLNPREKQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESCAFRKLKNKKRTKFLQQYI 611
BLAST of DCAR_015732 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A3Q7F260 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 655.21 bits (1689), Expect = 0.000e+0
Identity = 361/581 (62.13%), Postives = 434/581 (74.70%), Query Frame = 0
Match: A0A3Q7F260 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 655.21 bits (1689), Expect = 0.000e+0
Identity = 361/581 (62.13%), Postives = 434/581 (74.70%), Query Frame = 0
Query: 26 KYRETIYSRVQCSATVTTV--------------LDTPSLEAHSNSVAANRSWSE--STSNAVLDLEKLHLASLEVHSNSVATDRPWTHISDMDPPSEATLPMENLLTSEEAVIAAAASEAVALARAAAKSAKDAAMINSHKNSTKIDVKPTALTYEAVDSLSERPELTQ----LGVAGVSQISQSEGR-------------SDVEEPTVEELQILQEELGKSIAVRSSRQPERKARRARAAEKASATVVSVKSGSMSKKKRAS-QEIDHSDPLRYLRQTTSSSKLLTATEEQELSEGIQALLRLEKIYKELSERYGGEPSFIQWASAAGVDQITLRRQINYGKFCKDKMIKSNVRLVISIAKNYLKSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLPIYMVEAGYRVKEARQNLYNKNGRQASHEELAEATGLTMSRLSNVLLAPKPPRSLDQKIGFDLDLKPSDVIADPEAETSEELLIKELMRQDLNKVLDTLKPREKQVVRWRFGLDDGRMKTLQEIGEIMGVSRERIRQIELCAFRKLKNKRRTKSLQQYI 572
K R++I+ R QC + T+ L PS+E SNSVAA RSW + + V ++KL L S E + +SVA DRPWT+ + PP+EA E+ L SEEA++AAAA+EAVALA+AA K A+DA M+ + N D EA + E L Q GV ++++ SE + SD EP+ EEL+ILQ +L IAV+S+RQ ERKARRA+A E+A+A VVSVKSGS S+KKRAS Q++D+SDPLRYLR TT SS+LLTA+EEQELS GIQ LL+LE++ EL+ER GG+P+F QWA+AAGVDQ+TLR+++NYG CKDKMIKSNVRLVISIAKNY GMNLQDLVQEGCRGLVRGAEKFDA+KGFKFSTYAHWWIKQAVRK LSDQSRTIRLP +MVEA YRVKEAR+ L +NGR + E+AEATGL+M RL+ V+L PK PRSLDQK+GF+ LKPS+V+ADP+AETSEE+L K+ MRQDL KVLDTL PREKQVVRWRFGL+DGRMKTLQEIGE+MGVSRERIRQIE CAFRKLKNK+RTK LQQYI
Sbjct: 31 KSRDSIHLRTQCILSTTSAVTSTATSTVLGIEKLQLPSIEILSNSVAAERSWKSPSAATTTVPGIQKLKLPSFEANPDSVAPDRPWTYTGAVGPPAEANTKPEDSLASEEAIVAAAAAEAVALAKAALKGAQDAVMLVGYNNLKDSDNVGRGTLSEARTAPFESVHLAQPGETRGVGVCAELNGSEMKWTGSSLFRDTLTDSDDLEPSHEELEILQSQLSNVIAVKSNRQTERKARRAKAVERAAANVVSVKSGSTSRKKRASVQDVDYSDPLRYLRGTTCSSRLLTASEEQELSRGIQDLLKLERLQVELTERCGGQPTFTQWAAAAGVDQMTLRKRLNYGILCKDKMIKSNVRLVISIAKNYQGVGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLLTENGRHPNDAEVAEATGLSMKRLAAVMLTPKAPRSLDQKVGFNESLKPSEVLADPDAETSEEILTKQFMRQDLEKVLDTLNPREKQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESCAFRKLKNKKRTKFLQQYI 611
BLAST of DCAR_015732 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A4D9AHG4 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 647.121 bits (1668), Expect = 0.000e+0
Identity = 366/587 (62.35%), Postives = 437/587 (74.45%), Query Frame = 0
Match: A0A4D9AHG4 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 647.121 bits (1668), Expect = 0.000e+0
Identity = 366/587 (62.35%), Postives = 437/587 (74.45%), Query Frame = 0
Query: 22 LISVKYRETIYSRVQCSATVTTV-------------LDTPSLEAHSNSVAANRSWSESTS-NAVLDLEKLHLASLEVHSNSVATDRPWTHISDMDPPSE----ATLPMENLLTSEEAVIAAAASEAVALARAAAKSAKDAAMINSHKNSTKIDVKPTALTYEAVDSLSERPELT-------------QLGVAGVSQISQ--SEGRSDVEEPTVEELQILQEELGKSIAVRSSRQPERKARRARAAEKASATVVSVKSGSMSKKKRAS-QEIDHSDPLRYLRQTTSSSKLLTATEEQELSEGIQALLRLEKIYKELSERYGGEPSFIQWASAAGVDQITLRRQINYGKFCKDKMIKSNVRLVISIAKNYLKSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLPIYMVEAGYRVKEARQNLYNKNGRQASHEELAEATGLTMSRLSNVLLAPKPPRSLDQKIGFDLDLKPSDVIADPEAETSEELLIKELMRQDLNKVLDTLKPREKQVVRWRFGLDDGRMKTLQEIGEIMGVSRERIRQIELCAFRKLKNKRRTKSLQQYIIG 574
L + K RE I QC +VT+V L SLEA +S AA+RSW STS +A+L+LEK+ ASL+ +RP ++ + PPSE A L +LT EE VI AA SEA+ALA+ A K AKDAAM+ SH STK T + E + + E+ +LT ++G+ G +S +E DVE P+ EEL+ L+ +L I VRS RQ ERKARR+RAAEKA+A +VSVKSGS S+KKR+S QE+D+SDPLRYLR TTSSS+LLTA+EE+ LSEGIQALL+LEK+ EL++R+G P+F QWA+AAG+D TLR+Q+NYG CKDKMIKSN+RLVISIAKNYL +GMNLQDLVQEGCRGLVRG+EKFDASKGFKFSTYAHWWIKQAVRK LSDQSRTIRLP +MVEA YRVKEAR+ LY++NGR E+AEATGL+M RLS V+L PK PRSLDQKIG + DLKPSDVI+DPEAETSEELLIK+ MRQDL KVLD+L PREKQVV WRFGL+DGRMKTLQEIGE+MGVSRERIRQIE CA RKLKNK+RTK LQQY++
Sbjct: 3 LFAAKSREAINFWTQCILSVTSVPTATTSSVLELEKLQLSSLEAFPSSAAADRSWRASTSTSAMLELEKV--ASLDTRPIPFVAERPLKYVGAVGPPSEICLGANLDEATILTREETVITAA-SEALALAKEAVKVAKDAAMMISHHKSTKSSSTTTGMLREVDNLMFEKNQLTYPAEKVFTEAKVGEIGLGGNFPVSDPLAEPDDDVE-PSAEELEFLESQLSNIITVRSKRQTERKARRSRAAEKAAANIVSVKSGSSSRKKRSSVQEVDYSDPLRYLRGTTSSSRLLTASEEKMLSEGIQALLKLEKLQDELTQRFGSPPTFSQWAAAAGLDHQTLRQQLNYGVLCKDKMIKSNIRLVISIAKNYLGAGMNLQDLVQEGCRGLVRGSEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRVPDDAEVAEATGLSMKRLSAVMLTPKAPRSLDQKIGINQDLKPSDVISDPEAETSEELLIKQFMRQDLAKVLDSLNPREKQVVSWRFGLEDGRMKTLQEIGELMGVSRERIRQIESCALRKLKNKKRTKHLQQYVMA 585
BLAST of DCAR_015732 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1U7ZD19 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 645.966 bits (1665), Expect = 0.000e+0
Identity = 341/524 (65.08%), Postives = 423/524 (80.73%), Query Frame = 0
Match: A0A1U7ZD19 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 645.966 bits (1665), Expect = 0.000e+0
Identity = 341/524 (65.08%), Postives = 423/524 (80.73%), Query Frame = 0
Query: 71 VLDLEKLHLASLEVHSNSVATDRPWTHISDMDPPS----EATLPMENLLTSEEAVIAAAASEAVALARAAAKSAKDAAMINSHKNSTKIDVKPTALTYEAVDSLSERPELTQLGVAGVSQISQSEG----------------RSDVEEPTVEELQILQEELGKSIAVRSSRQPERKARRARAAEKASATVVSVKSGSMSKKKRAS-QEIDHSDPLRYLRQTTSSSKLLTATEEQELSEGIQALLRLEKIYKELSERYGGEPSFIQWASAAGVDQITLRRQINYGKFCKDKMIKSNVRLVISIAKNYLKSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLPIYMVEAGYRVKEARQNLYNKNGRQASHEELAEATGLTMSRLSNVLLAPKPPRSLDQKIGFDLDLKPSDVIADPEAETSEELLIKELMRQDLNKVLDTLKPREKQVVRWRFGLDDGRMKTLQEIGEIMGVSRERIRQIELCAFRKLKNKRRTKSLQQYII 573
++D+EKL + SLE HS SVA+DRP ++I PP+ EATL ME+L+T +EA+IAAAA+EAVALA+ A + AKDAA++ + K+S++ + P+ + E+ E+ +LT+ V +I S G SD + + EE ++LQ +L KSIAVRS RQ ER+ARRARA EKAS V+SVKSG S+K+RA+ Q+ID+SDPLRYLR TTS+S+LLTATEE ELSEGIQ LL+LEK+++EL+ER GG+P+F QWA+AAGVDQ TLR+++NYG CKDKMIKSN+RLVISIAKNY +GMNLQDLVQEGCRGLV+GAEKFDASKGFKFSTYAHWWIKQAVRK LSDQSRTIRLP +MVEA YRV+EA++ LY++NGR +EE+AEATGL+M RL+ VLL PK P SLDQKIG + D+KPS++IADP+AET+EELLIK+ M+QDL KVLD+L PREKQV+RWRFG++DGRMKTLQEIGE+MGVSRERIRQIE CAFRKLKNKRRTK+LQQY+I
Sbjct: 62 LVDVEKLRMPSLESHSISVASDRPLSYIGATGPPTKASFEATLAMESLITGDEALIAAAAAEAVALAKEAVEVAKDAALMVNDKSSSESENGPSDFSSESHIFRLEKAQLTE--TQEVGRIDHSVGLESRQEEEQSVQFSNKDSDGLDSSDEEFKLLQMQLLKSIAVRSGRQTERQARRARAMEKASTNVLSVKSGHSSRKRRAALQDIDYSDPLRYLRGTTSTSRLLTATEELELSEGIQDLLKLEKLHEELAERCGGQPTFAQWAAAAGVDQKTLRKRLNYGILCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVKGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVREAKKQLYSENGRHPDNEEVAEATGLSMKRLTAVLLTPKAPISLDQKIGMNQDMKPSEIIADPDAETAEELLIKQFMKQDLEKVLDSLNPREKQVIRWRFGMEDGRMKTLQEIGELMGVSRERIRQIESCAFRKLKNKRRTKNLQQYVI 583
BLAST of DCAR_015732 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A4D9BSP0 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 644.81 bits (1662), Expect = 0.000e+0
Identity = 364/587 (62.01%), Postives = 435/587 (74.11%), Query Frame = 0
Match: A0A4D9BSP0 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 644.81 bits (1662), Expect = 0.000e+0
Identity = 364/587 (62.01%), Postives = 435/587 (74.11%), Query Frame = 0
Query: 22 LISVKYRETIYSRVQCSATVTTV-------------LDTPSLEAHSNSVAANRSWSESTS-NAVLDLEKLHLASLEVHSNSVATDRPWTHISDMDPPSE----ATLPMENLLTSEEAVIAAAASEAVALARAAAKSAKDAAMINSHKNST-------------KIDVKPTALTYEAVDSLSERPELTQLGVAGVSQISQ--SEGRSDVEEPTVEELQILQEELGKSIAVRSSRQPERKARRARAAEKASATVVSVKSGSMSKKKRAS-QEIDHSDPLRYLRQTTSSSKLLTATEEQELSEGIQALLRLEKIYKELSERYGGEPSFIQWASAAGVDQITLRRQINYGKFCKDKMIKSNVRLVISIAKNYLKSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLPIYMVEAGYRVKEARQNLYNKNGRQASHEELAEATGLTMSRLSNVLLAPKPPRSLDQKIGFDLDLKPSDVIADPEAETSEELLIKELMRQDLNKVLDTLKPREKQVVRWRFGLDDGRMKTLQEIGEIMGVSRERIRQIELCAFRKLKNKRRTKSLQQYIIG 574
L + K RE I R QC +VT+V L SLEA +S AA+RSW S S +A+L+LEK+ SL+ +RP ++ + PPSE A L +LT EE VI AA SEA+ALA+ A K AKDAAM+ SH ST + + + LTY A +E ++ ++G+ G +S +E DVE P+ EEL+ L+ +L I VRS RQ ERKARR+RAAEKA+A +VSVKSGS S+KKR+S QE+D+SDPLRYLR TTSSS+LLTA+EE+ LSEGIQALL+LEK+ EL+ R+G P+F QWA+AAG+D TLR+Q+NYG CKDKMIKSN+RLVISIAKNYL +GMNLQDLVQEGCRGLVRG+EKFDASKGFKFSTYAHWWIKQAVRK LSDQSRTIRLP +MVEA YRVKEAR+ LY++NGR E+AEATGL+M RLS V+L PK PRSLDQKIG + DLKPSDVI+DPEAETSEELLIK+ MRQDL KVLD+L PREKQVV WRFGL+DGRMKTLQEIGE+MGVSRERIRQIE CA RKLKNK+RTK LQQY++
Sbjct: 3 LFAAKSREAINFRTQCILSVTSVPTATTSSVLELEKLQLSSLEAFPSSAAADRSWRASISTSAMLELEKV--VSLDTRPIPFVAERPLAYVGAVGPPSEIRLEANLDEATILTREETVITAA-SEALALAKEAVKLAKDAAMMISHHKSTKSSSTTTGISREGNLMFEKSHLTYPAEKVFTE-AKVGEIGLGGNFPVSDPLAEPDDDVE-PSAEELEFLESQLSNIITVRSKRQTERKARRSRAAEKAAANIVSVKSGSSSRKKRSSVQEVDYSDPLRYLRGTTSSSRLLTASEEKMLSEGIQALLKLEKLQDELTLRFGSPPTFAQWAAAAGLDHQTLRQQLNYGVLCKDKMIKSNIRLVISIAKNYLGAGMNLQDLVQEGCRGLVRGSEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRVPDDAEVAEATGLSMKRLSAVMLTPKAPRSLDQKIGINQDLKPSDVISDPEAETSEELLIKQFMRQDLAKVLDSLNPREKQVVSWRFGLEDGRMKTLQEIGELMGVSRERIRQIESCALRKLKNKKRTKHLQQYVMA 584
BLAST of DCAR_015732 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2G9I5X5 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 643.654 bits (1659), Expect = 0.000e+0
Identity = 368/586 (62.80%), Postives = 438/586 (74.74%), Query Frame = 0
Match: A0A2G9I5X5 (RNA polymerase sigma factor {ECO:0000256|PIRNR:PIRNR000767})
HSP 1 Score: 643.654 bits (1659), Expect = 0.000e+0
Identity = 368/586 (62.80%), Postives = 438/586 (74.74%), Query Frame = 0
Query: 22 LISVKYRETIYSRVQC--SAT-------VTTVLD------TPSLEAHSNSVAANRSWSESTSNA---VLDLEKLHLASLEVHSNSVATDRPWTHISDMDPPSEATLPM----ENLLTSEEAVIAAAASEAVALARAAAKSAKDAAMINSHKNSTKIDVKPTALTYEAVDSLSER-------------PELTQLGVAGVSQISQSEGRSDVEEPTVEELQILQEELGKSIAVRSSRQPERKARRARAAEKASATVVSVKSGSMSKKKRASQEIDHSDPLRYLRQTTSSSKLLTATEEQELSEGIQALLRLEKIYKELSERYGGEPSFIQWASAAGVDQITLRRQINYGKFCKDKMIKSNVRLVISIAKNYLKSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIRLPIYMVEAGYRVKEARQNLYNKNGRQASHEELAEATGLTMSRLSNVLLAPKPPRSLDQKIGFDLDLKPSDVIADPEAETSEELLIKELMRQDLNKVLDTLKPREKQVVRWRFGLDDGRMKTLQEIGEIMGVSRERIRQIELCAFRKLKNKRRTKSLQQYI 572
+ S K RE I R QC S T TTVL+ +P LEA NSV RSW++ TS A VL LEKL SL+ H +A +PWT++ + PPSE L E+L+TSEEAVI+AAASEA+ALA+AA K AKDAAM+ SH S K + + + S+ E+ P+ ++G+ S SD EP+ +EL+ L+ +L KSIAVRS RQ ERKARR RAAEKA+A VVSVKSGS KK+ A QE+D+SDPLRYLR TTSSS+LLT++EEQ LSEGIQ LL+LE++ +EL +R GG+P+F QWA+AA VDQ TLR+QINYG CKDKMIKSN+RLVISIAKNY +GMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRK LSDQSRTIRLP +MVEA YRVKEAR+ LY++NGR EE+A+ATGL+M RLS V+L PK PRSLDQK+G + DLKPS+VIADP+AETSE+LLIK+ M+QDL KVLD+L PREKQV++WRFGL+DGRMKTLQEIGE MGVSRERIRQIE CAFRKLKNK+RTK L QY+
Sbjct: 27 VFSSKSREAINFRTQCILSTTSPPTLTAATTVLEYEKLQLSP-LEAIPNSVPPGRSWTKPTSTANSSVLHLEKL--PSLDTHPIPIAASKPWTYVGAVGPPSEVNLSTNLDKESLITSEEAVISAAASEALALAKAAVKVAKDAAMMVSHHKSIKPGSRTRRILSDVDTSIFEKSQLADPVQRVVGGPKAAEIGLGEKYPASYPLSESDDVEPSAKELEFLEAQLSKSIAVRSKRQTERKARRTRAAEKAAANVVSVKSGSSRKKRSAVQEVDYSDPLRYLRGTTSSSRLLTSSEEQVLSEGIQVLLKLERLQEELKQRCGGQPTFAQWAAAACVDQKTLRKQINYGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRLPDDEEVAQATGLSMKRLSAVMLTPKAPRSLDQKVGINQDLKPSEVIADPDAETSEDLLIKQFMKQDLAKVLDSLSPREKQVIKWRFGLEDGRMKTLQEIGEAMGVSRERIRQIESCAFRKLKNKKRTKHLLQYV 609
| Match Name | Stats | Description |
|---|---|---|
| A0A6P4B029 | E-Value: 0.000e+0, PID: 66.79 | RNA polymerase sigma factor {ECO:0000256|PIRNR:PIR... [more] |
| A0A5B6ZZE0 | E-Value: 0.000e+0, PID: 67.84 | RNA polymerase sigma factor {ECO:0000256|PIRNR:PIR... [more] |
| A0A5B6ZYY3 | E-Value: 0.000e+0, PID: 67.66 | RNA polymerase sigma factor {ECO:0000256|PIRNR:PIR... [more] |
| A0A6N2BUR2 | E-Value: 0.000e+0, PID: 62.31 | RNA polymerase sigma factor {ECO:0000256|PIRNR:PIR... [more] |
| M1D2M3 | E-Value: 0.000e+0, PID: 62.13 | RNA polymerase sigma factor {ECO:0000256|PIRNR:PIR... [more] |
| A0A3Q7F260 | E-Value: 0.000e+0, PID: 62.13 | RNA polymerase sigma factor {ECO:0000256|PIRNR:PIR... [more] |
| A0A4D9AHG4 | E-Value: 0.000e+0, PID: 62.35 | RNA polymerase sigma factor {ECO:0000256|PIRNR:PIR... [more] |
| A0A1U7ZD19 | E-Value: 0.000e+0, PID: 65.08 | RNA polymerase sigma factor {ECO:0000256|PIRNR:PIR... [more] |
| A0A4D9BSP0 | E-Value: 0.000e+0, PID: 62.01 | RNA polymerase sigma factor {ECO:0000256|PIRNR:PIR... [more] |
| A0A2G9I5X5 | E-Value: 0.000e+0, PID: 62.80 | RNA polymerase sigma factor {ECO:0000256|PIRNR:PIR... [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. |