Resource Type:
Polypeptide
Name:
DCAR_004776
Identifier:
DCAR_004776.mRNA-protein
Sequence:
MEETRSVATLIESTTTKIQQLQKAFAELESHRAVTLNMKWQQLEEHFHGL
EKSLKRRFNDLEGQEQEYKNKTLRARETLVKREADIIAKEQASLNRLQEK
RDAAVYAISSKTTAKHKKPCIEPTFVTTKNQCGILLVEEKPPDIMASQDN
SKSMKKFTQNVNVEGQSYPQLVRLCQANDSEGLHKFISENRKNLAAIKEE
IPIALSASADPANLVLDSLQGFYSIQGAQLDGKKDSYLLGLRRTCIMLME
CLRLLLATLDMGSFSYVISDVKERAKAIAEEWQPKLVDLDLDASNGNSLE
AHAFLQLIATFGISSDYDQEVLSKMIPMVSRRQQTADLCRSLGLSERMPG
VIDVLVSNGRQIDAVNLAFSFELTEKYSPVSLLESYLTEAKQTTSPSKSA
NASPTVQTEVNERELAALKAVIKCIEDHRLEKQYPIDPLQKQVLQLEKAK
ADKKRATEVAKPQPKRPRANGTGSVPRTANVAAERNFYPRMTDRYPQYVY
DRPYAYTGPTDNHIQSVLGPASYNLSPAHGNYFANGYQYQAPYLH*
Sequence Length:
546
Sequence Checksum:
18b6800cbfff62ae9738feeb9b4f7bd2
View location in JBrowse:
Organism:
Relationship:
| Relationships |
|---|
| The polypeptide, DCAR_004776, derives from mRNA, DCAR_004776. |
Blast Results:
The following BLAST results are available for this feature:
BLAST of DCAR_004776 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_004776 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7A4C6 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 848.581 bits (2191), Expect = 0.000e+0
Identity = 408/546 (74.73%), Postives = 470/546 (86.08%), Query Frame = 0
Match: A0A5B7A4C6 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 848.581 bits (2191), Expect = 0.000e+0
Identity = 408/546 (74.73%), Postives = 470/546 (86.08%), Query Frame = 0
Query: 1 MEETRSVATLIESTTTKIQQLQKAFAELESHRAVTLNMKWQQLEEHFHGLEKSLKRRFNDLEGQEQEYKNKTLRARETLVKREADIIAKEQASLNRLQEKRDAAVYAISSKTTAKHKKPCIEPTFVTTKNQCGILLVEEKPPDIMASQDNSKSMKKFTQNVNVEGQSYPQLVRLCQANDSEGLHKFISENRKNLAAIKEEIPIALSASADPANLVLDSLQGFYSIQGAQLDGKKDSYLLGLRRTCIMLMECLRLLLATLDMGSFSYVIS-DVKERAKAIAEEWQPKLVDLDLDASNGNSLEAHAFLQLIATFGISSDYDQEVLSKMIPMVSRRQQTADLCRSLGLSERMPGVIDVLVSNGRQIDAVNLAFSFELTEKYSPVSLLESYLTEAKQTTSPSKSANASPTVQTEVNERELAALKAVIKCIEDHRLEKQYPIDPLQKQVLQLEKAKADKKRATEVAKPQPKRPRANGTGSVPRTANVAAERNFYPRMTDRYPQYVYDRPYAYTGPTDNHIQSVLGPASYNLSPAHGNYFANGYQYQAPYLH 545
ME+T+SVATLI+STT+KIQQLQKAFAELESHRA+TLN+KW+QLEEHFHGLEKSLKRRFN+LEGQE+EYK KT+ ARE L KREA ++AKEQASL LQEKRDAA AI + K +EP +T++ Q G+ LVEEKPPD MA++ N + MK ++N NVE S PQLV+LCQ DSEGLHKFIS+NRKNLA ++EEIP+AL A+ADPA LVLDSL+GFYS++ LDGKKDS LLGLRRTCIMLMEC +LL LD+G S VIS DVKERAKAIAEEW+PKL +LD+DASNGNSLEAHAFLQL+ATFGI+SD+DQE LSK+IPMVSRR+QTADLCR LGLS++MPGVIDVLV+NGRQIDAVNLAF+FELTE+YSP+SLL+SYLTEA++ +SP KS N SP VQ EVNEREL ALKAVIKCIEDH+LE+QYP+DPLQK+V QLEKAKADKKRATEVAKP PKRPRANG G PR NVA ++NFY RMTDRY QY+YDRPY Y GPTDNHI S+LG A+YNLSP+HGNYF NGYQYQAPYLH
Sbjct: 1 MEDTQSVATLIDSTTSKIQQLQKAFAELESHRAITLNLKWKQLEEHFHGLEKSLKRRFNELEGQEKEYKTKTMEAREILEKREAAVMAKEQASLETLQEKRDAAFSAIVNALEKHGKLFSVEPAVITSEGQGGVPLVEEKPPDAMAAESNLEDMKNSSENGNVEVNSNPQLVKLCQEMDSEGLHKFISDNRKNLATLREEIPLALKAAADPACLVLDSLKGFYSMEVPSLDGKKDSNLLGLRRTCIMLMECFSILLTNLDLGPVSDVISEDVKERAKAIAEEWKPKLDNLDVDASNGNSLEAHAFLQLLATFGINSDFDQEDLSKLIPMVSRRRQTADLCRFLGLSDKMPGVIDVLVNNGRQIDAVNLAFAFELTEQYSPISLLKSYLTEARKVSSPVKSGNTSP-VQNEVNERELTALKAVIKCIEDHKLEEQYPLDPLQKRVQQLEKAKADKKRATEVAKPLPKRPRANGVGYGPRVTNVATDKNFYARMTDRYTQYMYDRPYVYPGPTDNHIPSLLGSAAYNLSPSHGNYFGNGYQYQAPYLH 545
BLAST of DCAR_004776 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7A5R8 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 842.417 bits (2175), Expect = 0.000e+0
Identity = 407/549 (74.13%), Postives = 474/549 (86.34%), Query Frame = 0
Match: A0A5B7A5R8 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 842.417 bits (2175), Expect = 0.000e+0
Identity = 407/549 (74.13%), Postives = 474/549 (86.34%), Query Frame = 0
Query: 1 MEETRSVATLIESTTTKIQQLQKAFAELESHRAVTLNMKWQQLEEHFHGLEKSLKRRFNDLEGQEQEYKNKTLRARETLVKREADIIAKEQASLNRLQEKRDAAVYAISSKTTAKHKKPCI-EPTFVTTKNQCGILLVEEKPPDIMASQDNSKSMKKFTQNVNVEGQSYPQLVRLCQANDSEGLHKFISENRKNLAAIKEEIPIALSASADPANLVLDSLQGFYSIQGAQLDGKKDSYLLGLRRTCIMLMECLRLLLATLDMGSFSYVIS-DVKERAKAIAEEWQPKLVDLDLDASNGNSLEAHAFLQLIATFGISSDYDQEVLSKMIPMVSRRQQTADLCRSLGLSERMPGVIDVLVSNGRQIDAVNLAFSFELTEKYSPVSLLESYLTEAKQTTSPSKSANASPTVQTEVNERELAALKAVIKCIEDHRLEKQYPIDPLQKQVLQLEKAKADKKRATEVAKPQPKRPRA--NGTGSVPRTANVAAERNFYPRMTDRYPQYVYDRPYAYTGPTDNHIQSVLGPASYNLSPAHGNYFANGYQYQAPYLH 545
ME+T+SVATLI+STT+KIQQLQKAFAELES+RA+TLN+KW+QLEEHFHGLEKSLKRRFNDLE QE+EY+ KT++A+E L KREA ++AKEQASL RLQEKRDA V AI++ KHKK EPT VT++ Q G +EEKPPD+MA++ N + +K ++N VE +SYPQLV+LCQ DSEG+HKFIS+NRKNLAAI+EEIPIA A+ADPA LVLDSL+GFY ++ LDGKKDS LLGLRRTCIMLMECL +LL LD+ S S VIS DVKERAK IAEEW+P+L DLD+DA+NGNSLEAHAFLQL+ATFGI+SD+DQE LSK+IPMVSRR+QTADLCR LGLS++MPGVIDVLV+NGRQIDAVNLAF+FELTE++SPVSLL+SYLTEA++ +SP KS N SPTVQ E NEREL ALKAVIKCIEDH+LE+QY DPLQK+V QLEK KADKKRATEVAKPQPKRPRA NG G PR NVA ++NFY RMTDRYPQY+YDRPY YTGPTDNH+ S+LG A+YNLSP+HGNYF NGYQYQAPYLH
Sbjct: 1 MEDTQSVATLIDSTTSKIQQLQKAFAELESYRAITLNLKWKQLEEHFHGLEKSLKRRFNDLEDQEKEYETKTMKAQEMLEKREAAVMAKEQASLERLQEKRDAVVSAIAN-AIEKHKKLFPDEPTVVTSEGQVGAPFMEEKPPDVMAAESNLEDIKNSSENGYVEVKSYPQLVKLCQEMDSEGIHKFISDNRKNLAAIREEIPIAFKAAADPACLVLDSLKGFYRMEVPNLDGKKDSNLLGLRRTCIMLMECLSILLTNLDLSSVSDVISEDVKERAKTIAEEWKPRLDDLDVDANNGNSLEAHAFLQLLATFGINSDFDQEDLSKLIPMVSRRRQTADLCRFLGLSDKMPGVIDVLVNNGRQIDAVNLAFAFELTEQFSPVSLLKSYLTEARKVSSPVKSGNTSPTVQNEFNERELTALKAVIKCIEDHKLEEQYSPDPLQKRVQQLEKVKADKKRATEVAKPQPKRPRASPNGVGYGPRVTNVATDKNFYARMTDRYPQYIYDRPYVYTGPTDNHLPSLLGSATYNLSPSHGNYFGNGYQYQAPYLH 548
BLAST of DCAR_004776 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A4S4D334 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 841.647 bits (2173), Expect = 0.000e+0
Identity = 404/547 (73.86%), Postives = 475/547 (86.84%), Query Frame = 0
Match: A0A4S4D334 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 841.647 bits (2173), Expect = 0.000e+0
Identity = 404/547 (73.86%), Postives = 475/547 (86.84%), Query Frame = 0
Query: 1 MEETRSVATLIESTTTKIQQLQKAFAELESHRAVTLNMKWQQLEEHFHGLEKSLKRRFNDLEGQEQEYKNKTLRARETLVKREADIIAKEQASLNRLQEKRDAAVYAISSKTTAKHKKPCIEPTFVTTKNQCGILLVEEKPPDIMASQDNSKSMKKFTQNVNVEGQSYPQLVRLCQANDSEGLHKFISENRKNLAAIKEEIPIALSASADPANLVLDSLQGFYSIQGAQLDGKKDSYLLGLRRTCIMLMECLRLLLATLDMGSFSYVISD-VKERAKAIAEEWQPKLVDLDLDASNGNSLEAHAFLQLIATFGISSDYDQEVLSKMIPMVSRRQQTADLCRSLGLSERMPGVIDVLVSNGRQIDAVNLAFSFELTEKYSPVSLLESYLTEAKQTTSPSKSANASPTVQTEVNERELAALKAVIKCIEDHRLEKQYPIDPLQKQVLQLEKAKADKKRATEVAKPQPKRPRANG-TGSVPRTANVAAERNFYPRMTDRYPQYVYDRPYAYTGPTDNHIQSVLGPASYNLSPAHGNYFANGYQYQAPYLH 545
ME+T+SVATL++STT+KIQQLQKAFAELESHRA+TLN+KW+QLEEHFHGLEKSLKRRF +LE QE+E++ KT++ARE L KREA ++AKE ASL RLQEKRDAAV+AI++ K +EP ++++Q G VEEKPPD MA++ N + MKK+++N NV + PQLV+LCQ DSEGLHKFIS+NRKNLA IKEEIPIAL A+ADPA+LVLDSL+GFYS++ + +DGKKDS LLGLRRTCIMLMECL +LL LD+ S S +IS+ VKERAKAIAEEW+PKL DLD DA+NGNSLEAHAFLQL+ATFGI SD+D E LSK+IPMVSRR+QTADLCRSLGLSE+MPGVI+VLVSNGRQIDAVNLAF+F LTE++SPVSLL+SYLTEAK+ +SPSKS N SPTVQ EVNEREL ALKAVIKCIEDH+LE+QYP+DPLQKQVLQLEKAKADKKRATEVAKPQPKRPRANG G PR NVAA++NFYPR+TDRYPQY+YDRPY Y GPTDNH+ SV+G +Y +SP HGN+F NG+QYQAPYLH
Sbjct: 151 MEDTQSVATLVDSTTSKIQQLQKAFAELESHRAITLNLKWKQLEEHFHGLEKSLKRRFTELEDQEKEFETKTMKAREMLKKREAAVMAKEHASLERLQEKRDAAVFAITNALQKHRKVSSVEPAVDSSEDQGGAPFVEEKPPDSMAAESNFEDMKKYSENQNVVVNN-PQLVKLCQEMDSEGLHKFISDNRKNLATIKEEIPIALKAAADPASLVLDSLKGFYSMEVSNMDGKKDSNLLGLRRTCIMLMECLSILLTNLDLSSVSNLISEKVKERAKAIAEEWKPKLDDLDADANNGNSLEAHAFLQLLATFGIDSDFDHEDLSKLIPMVSRRRQTADLCRSLGLSEKMPGVINVLVSNGRQIDAVNLAFAFGLTEQFSPVSLLKSYLTEAKKVSSPSKSGNTSPTVQNEVNERELTALKAVIKCIEDHKLEQQYPMDPLQKQVLQLEKAKADKKRATEVAKPQPKRPRANGVVGHGPRFTNVAADKNFYPRVTDRYPQYIYDRPYVYPGPTDNHVPSVMGSPAY-MSPVHGNFFGNGFQYQAPYLH 695
BLAST of DCAR_004776 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7A8Z9 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 841.647 bits (2173), Expect = 0.000e+0
Identity = 407/547 (74.41%), Postives = 474/547 (86.65%), Query Frame = 0
Match: A0A5B7A8Z9 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 841.647 bits (2173), Expect = 0.000e+0
Identity = 407/547 (74.41%), Postives = 474/547 (86.65%), Query Frame = 0
Query: 1 MEETRSVATLIESTTTKIQQLQKAFAELESHRAVTLNMKWQQLEEHFHGLEKSLKRRFNDLEGQEQEYKNKTLRARETLVKREADIIAKEQASLNRLQEKRDAAVYAISSKTTAKHKKPCI-EPTFVTTKNQCGILLVEEKPPDIMASQDNSKSMKKFTQNVNVEGQSYPQLVRLCQANDSEGLHKFISENRKNLAAIKEEIPIALSASADPANLVLDSLQGFYSIQGAQLDGKKDSYLLGLRRTCIMLMECLRLLLATLDMGSFSYVIS-DVKERAKAIAEEWQPKLVDLDLDASNGNSLEAHAFLQLIATFGISSDYDQEVLSKMIPMVSRRQQTADLCRSLGLSERMPGVIDVLVSNGRQIDAVNLAFSFELTEKYSPVSLLESYLTEAKQTTSPSKSANASPTVQTEVNERELAALKAVIKCIEDHRLEKQYPIDPLQKQVLQLEKAKADKKRATEVAKPQPKRPRANGTGSVPRTANVAAERNFYPRMTDRYPQYVYDRPYAYTGPTDNHIQSVLGPASYNLSPAHGNYFANGYQYQAPYLH 545
ME+T+SVATLI+STT+KIQQLQKAFAELES+RA+TLN+KW+QLEEHFHGLEKSLKRRFNDLE QE+EY+ KT++A+E L KREA ++AKEQASL RLQEKRDA V AI++ KHKK EPT VT++ Q G +EEKPPD+MA++ N + +K ++N VE +SYPQLV+LCQ DSEG+HKFIS+NRKNLAAI+EEIPIA A+ADPA LVLDSL+GFY ++ LDGKKDS LLGLRRTCIMLMECL +LL LD+ S S VIS DVKERAK IAEEW+P+L DLD+DA+NGNSLEAHAFLQL+ATFGI+SD+DQE LSK+IPMVSRR+QTADLCR LGLS++MPGVIDVLV+NGRQIDAVNLAF+FELTE+YSP+SLL+SYLTEA++ +SP KS N SP VQ EVNEREL ALKAVIKCIEDH+LE+QYP+DPLQK+V QLEKAKADKKRATEVAKP PKRPRANG G PR NVA ++NFY RMTDRY QY+YDRPY Y GPTDNHI S+LG A+YNLSP+HGNYF NGYQYQAPYLH
Sbjct: 1 MEDTQSVATLIDSTTSKIQQLQKAFAELESYRAITLNLKWKQLEEHFHGLEKSLKRRFNDLEDQEKEYETKTMKAQEMLEKREAAVMAKEQASLERLQEKRDAVVSAIAN-AIEKHKKLFPDEPTVVTSEGQVGAPFMEEKPPDVMAAESNLEDIKNSSENGYVEVKSYPQLVKLCQEMDSEGIHKFISDNRKNLAAIREEIPIAFKAAADPACLVLDSLKGFYRMEVPNLDGKKDSNLLGLRRTCIMLMECLSILLTNLDLSSVSDVISEDVKERAKTIAEEWKPRLDDLDVDANNGNSLEAHAFLQLLATFGINSDFDQEDLSKLIPMVSRRRQTADLCRFLGLSDKMPGVIDVLVNNGRQIDAVNLAFAFELTEQYSPISLLKSYLTEARKVSSPVKSGNTSP-VQNEVNERELTALKAVIKCIEDHKLEEQYPLDPLQKRVQQLEKAKADKKRATEVAKPLPKRPRANGVGYGPRVTNVATDKNFYARMTDRYTQYMYDRPYVYPGPTDNHIPSLLGSAAYNLSPSHGNYFGNGYQYQAPYLH 545
BLAST of DCAR_004776 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A061DLP5 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 813.913 bits (2101), Expect = 0.000e+0
Identity = 392/546 (71.79%), Postives = 462/546 (84.62%), Query Frame = 0
Match: A0A061DLP5 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 813.913 bits (2101), Expect = 0.000e+0
Identity = 392/546 (71.79%), Postives = 462/546 (84.62%), Query Frame = 0
Query: 1 MEETRSVATLIESTTTKIQQLQKAFAELESHRAVTLNMKWQQLEEHFHGLEKSLKRRFNDLEGQEQEYKNKTLRARETLVKREADIIAKEQASLNRLQEKRDAAVYAISSKTTAKHKKPCIEPTFVTTKNQCGILLVEEKPPDIMASQDNSKSMKKFTQNVNVEGQSYPQLVRLCQANDSEGLHKFISENRKNLAAIKEEIPIALSASADPANLVLDSLQGFYSIQGAQLDGKKDSYLLGLRRTCIMLMECLRLLLATLDMGSFSYVIS-DVKERAKAIAEEWQPKLVDLDLDASNGNSLEAHAFLQLIATFGISSDYDQEVLSKMIPMVSRRQQTADLCRSLGLSERMPGVIDVLVSNGRQIDAVNLAFSFELTEKYSPVSLLESYLTEAKQTTSPSKSANASPTVQTEVNERELAALKAVIKCIEDHRLEKQYPIDPLQKQVLQLEKAKADKKRATEVAKPQPKRPRANGTGSVPRTANVAAERNFYPRMTDRYPQYVYDRPYAYTGPTDNHIQSVLGPASYNLSPAHGNYFANGYQYQAPYLH 545
ME+T+SVATLI+STT+KIQQLQKAFAELESHRA+TLNMKW++LEEHFHGLEKSLKRRF++LE QE+E++ KT +ARE L KREA ++AKEQASL RLQEKRDAAV+AI++ K EP V+ G L VEEKPPD +AS+ N + +K +N N E +SYPQLV+LC+ DSEGLHKFIS+NRKNLAA+KEEIP AL A+A PA LVL+SL+GFY + +DGKKDS LLGLRRTCIMLMECL LL+ LD+ S VIS D+KE+AK+IAEEW+PKL LD+DASNGNSLEAHAFLQL++TFGI+SD+++E LS++IPMVSRR+QTADLCRSLGLSE+MPGVI+VLV+NGRQIDAVNLAF+FELTE++SPV LL+SYL EA++ +SP K NASP+ QTEVNEREL ALKAVIKCIE+H LE+QYPIDPLQK+VL LEKAKADKKRATE AKPQPKRPRANG G PR N AA++ FYPR+TDRYPQYVYDRPY YTGP DNH S+LG A+YN SP+HGNYF NGYQYQAPYLH
Sbjct: 1 MEDTQSVATLIDSTTSKIQQLQKAFAELESHRAITLNMKWKELEEHFHGLEKSLKRRFHELEDQEKEFETKTRKAREILQKREAAVVAKEQASLLRLQEKRDAAVFAITNSLEKHRKLSSEEPADVSCDGDSGELSVEEKPPDSVASESNLEDIKSSFENGNFEVKSYPQLVKLCEEMDSEGLHKFISDNRKNLAALKEEIPWALKAAASPACLVLESLEGFYLSEVPNVDGKKDSNLLGLRRTCIMLMECLSFLLSNLDVVSVCAVISEDIKEQAKSIAEEWKPKLDSLDIDASNGNSLEAHAFLQLLSTFGIASDFNEEELSRLIPMVSRRRQTADLCRSLGLSEKMPGVIEVLVNNGRQIDAVNLAFAFELTEQFSPVPLLKSYLKEARKASSPVKPGNASPSAQTEVNERELTALKAVIKCIEEHNLEEQYPIDPLQKRVLLLEKAKADKKRATEAAKPQPKRPRANGAGYGPRVTNGAADKAFYPRVTDRYPQYVYDRPYVYTGPADNHGPSLLGSATYNFSPSHGNYFGNGYQYQAPYLH 546
BLAST of DCAR_004776 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6J0ZHW3 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 810.446 bits (2092), Expect = 0.000e+0
Identity = 391/546 (71.61%), Postives = 461/546 (84.43%), Query Frame = 0
Match: A0A6J0ZHW3 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 810.446 bits (2092), Expect = 0.000e+0
Identity = 391/546 (71.61%), Postives = 461/546 (84.43%), Query Frame = 0
Query: 1 MEETRSVATLIESTTTKIQQLQKAFAELESHRAVTLNMKWQQLEEHFHGLEKSLKRRFNDLEGQEQEYKNKTLRARETLVKREADIIAKEQASLNRLQEKRDAAVYAISSKTTAKHKKPCIEPTFVTTKNQCGILLVEEKPPDIMASQDNSKSMKKFTQNVNVEGQSYPQLVRLCQANDSEGLHKFISENRKNLAAIKEEIPIALSASADPANLVLDSLQGFYSIQGAQLDGKKDSYLLGLRRTCIMLMECLRLLLATLDMGSFSYVIS-DVKERAKAIAEEWQPKLVDLDLDASNGNSLEAHAFLQLIATFGISSDYDQEVLSKMIPMVSRRQQTADLCRSLGLSERMPGVIDVLVSNGRQIDAVNLAFSFELTEKYSPVSLLESYLTEAKQTTSPSKSANASPTVQTEVNERELAALKAVIKCIEDHRLEKQYPIDPLQKQVLQLEKAKADKKRATEVAKPQPKRPRANGTGSVPRTANVAAERNFYPRMTDRYPQYVYDRPYAYTGPTDNHIQSVLGPASYNLSPAHGNYFANGYQYQAPYLH 545
ME+T+SVATLI+STT+KIQQLQKAFAELESHRA+TLNMKW++LEEHFHGLEKSLKRRF++LE QE+E++ KT +ARE L KREA ++AKEQASL RLQEKRDAAV+AI++ K EP V+ G L VEEKPPD + S+ N + +K +N N E +SYPQLV+LC+ DSEGLHKFIS+NRKNLAA+KEEIP AL A+A PA LVL+SL+GFY + +DGKKDS LLGLRRTCIMLMECL LL+ LD+ S VIS D+KE+AK+IAEEW+PKL LD+DASNGNSLEAHAFLQL++TFGI+SD+++E LS++IPMVSRR+QTADLCRSLGLSE+M GVI+VLV+NGRQIDAVNLAF+FELTE++SPV LL+SYL EA++ +SP K NASP+ QTEVNEREL ALKAVIKCIE+H LE+QYPIDPLQK+VL LEKAKADKKRATE AKPQPKRPRANG G PR NVAA++ FYPR+TDRYPQYVYDRPY YTGP DNH S+LG A+YN SP+HGNYF NGYQYQAPYLH
Sbjct: 1 MEDTQSVATLIDSTTSKIQQLQKAFAELESHRAITLNMKWKELEEHFHGLEKSLKRRFHELEDQEKEFETKTRKAREMLQKREAAVVAKEQASLFRLQEKRDAAVFAITNALEKHRKLSSEEPADVSCDGDSGELSVEEKPPDSVPSESNLEDIKSSFENGNFEVKSYPQLVKLCEEMDSEGLHKFISDNRKNLAALKEEIPWALKAAASPACLVLESLEGFYLSEVPNVDGKKDSNLLGLRRTCIMLMECLSFLLSNLDVVSVCAVISEDIKEQAKSIAEEWKPKLDALDIDASNGNSLEAHAFLQLLSTFGIASDFNEEELSRLIPMVSRRRQTADLCRSLGLSEKMTGVIEVLVNNGRQIDAVNLAFAFELTEQFSPVPLLKSYLKEARKASSPVKPGNASPSAQTEVNERELTALKAVIKCIEEHNLEEQYPIDPLQKRVLLLEKAKADKKRATEAAKPQPKRPRANGAGYGPRVTNVAADKAFYPRITDRYPQYVYDRPYVYTGPADNHGPSLLGSATYNFSPSHGNYFGNGYQYQAPYLH 546
BLAST of DCAR_004776 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J0GRC6 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 806.979 bits (2083), Expect = 0.000e+0
Identity = 385/549 (70.13%), Postives = 459/549 (83.61%), Query Frame = 0
Match: A0A7J0GRC6 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 806.979 bits (2083), Expect = 0.000e+0
Identity = 385/549 (70.13%), Postives = 459/549 (83.61%), Query Frame = 0
Query: 1 MEETRSVATLIESTTTKIQQLQKAFAELESHRAVTLNMKWQQLEEHFHGLEKSLKRRFNDLEGQEQEYKNKTLRARETLVKREADIIAKEQASLNRLQEKRDAAVYAISSKTTAKHKKPCIEPTFVTTKNQCGILLVEEKPPDIMASQDNSKSMKKFTQNVNVEGQSYPQLVRLCQANDSEGLHKFISENRKNLAAIKEEIPIALSASADPANLVLDSLQGFYSIQGAQLDGKKDSYLLGLRRTCIMLMECLRLLLATLDMGSFSYVIS-DVKERAKAIAEEWQPKLVDLDLDASNGNSLEAHAFLQLIATFGISSDYDQEVLSKMIPMVSRRQQTADLCRSLGLSERMPGVIDVLVSNGRQIDAVNLAFSFELTEKYSPVSLLESYLTEAKQTTSPSKSANASPTVQTEVNERELAALKAVIKCIEDHRLEKQYPIDPLQKQVLQLEKAKADKKRATEVAKPQPKRPRANGTGSVPRTANVAAERNFYPRMTDRYPQYVYDRPYAYTGPTDNHIQSVLGPASYNLSPAHGNYFANGYQY---QAPYLH 545
ME+T+SVATLI+STT+KI++LQKAF ELESHRA+TLN+KW+QLEEHFHGLEKSLKRRF +LE QE+EY+ KT+ A E L KREAD++AKEQASL RLQEKRDAAV AI++ K EP +T +NQ G VEEKPPD+MA++ N MKK ++ VE YPQLV LC+A DSEGLHKFIS+NRKNLA+I+EEIP+AL A+ DPA+LVLDSL GFY ++ + LDGKKDS LLGLRRTCIMLMECL +LLA LD S S++IS +V+E+AKA+ EEW+PKL +LD+DA+NGNSLEAHAFLQL++TFGI SD+DQE LSK+IPMVSRR+QTADLCR LGLS++MPGVI+VLV+NGRQIDAVNLAF FELTE++SPV+LL+SYL EAK+ +SP K N SP+VQ EV+EREL ALKAVIKC+EDH+LE YP+DPLQK+VLQLEKAKADKKRA EVAKPQPKRPRANG G PR N AA++NFY RMTDRY QY+YDRPY Y GPTDNH+ S+LG A Y + P HGN+F NG+QY QAPYLH
Sbjct: 1 MEDTQSVATLIDSTTSKIKELQKAFTELESHRAITLNLKWKQLEEHFHGLEKSLKRRFTELEDQEKEYETKTMEAWEMLEKREADVMAKEQASLERLQEKRDAAVSAIANAFQKHRKISSGEPAAITNENQGGSPSVEEKPPDMMAAESNLDDMKKTSEKECVEVMCYPQLVNLCRAMDSEGLHKFISDNRKNLASIREEIPLALKAATDPASLVLDSLNGFYCMEVSDLDGKKDSNLLGLRRTCIMLMECLSILLANLDHSSVSHIISENVREQAKAVVEEWKPKLDNLDMDANNGNSLEAHAFLQLLSTFGIDSDFDQEDLSKLIPMVSRRRQTADLCRFLGLSDKMPGVINVLVNNGRQIDAVNLAFEFELTEQFSPVTLLKSYLNEAKKVSSPVKKGNTSPSVQNEVSERELTALKAVIKCVEDHKLEALYPLDPLQKRVLQLEKAKADKKRAPEVAKPQPKRPRANGVGHGPRVTNAAADKNFYARMTDRYSQYMYDRPYVYPGPTDNHVPSLLGSAGYAMPPGHGNFFRNGFQYQAVQAPYLH 549
BLAST of DCAR_004776 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5C585 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 805.053 bits (2078), Expect = 0.000e+0
Identity = 397/547 (72.58%), Postives = 462/547 (84.46%), Query Frame = 0
Match: A0A5J5C585 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 805.053 bits (2078), Expect = 0.000e+0
Identity = 397/547 (72.58%), Postives = 462/547 (84.46%), Query Frame = 0
Query: 1 MEETRSVATLIESTTTKIQQLQKAFAELESHRAVTLNMKWQQLEEHFHGLEKSLKRRFNDLEGQEQEYKNKTLRARETLVKREADIIAKEQASLNRLQEKRDAAVYAISSKTTAKHKKPC-IEPTFVTTKNQCGILLVEEKPPDIMASQDNSKSMKKFTQNVNVEGQSYPQLVRLCQANDSEGLHKFISENRKNLAAIKEEIPIALSASADPANLVLDSLQGFYSIQGAQLDGKKDSYLLGLRRTCIMLMECLRLLLATLDMGSFSYVIS-DVKERAKAIAEEWQPKLVDLDLDASNGNSLEAHAFLQLIATFGISSDYDQEVLSKMIPMVSRRQQTADLCRSLGLSERMPGVIDVLVSNGRQIDAVNLAFSFELTEKYSPVSLLESYLTEAKQTTSPSKSANASPTVQTEVNERELAALKAVIKCIEDHRLEKQYPIDPLQKQVLQLEKAKADKKRATEVAKPQPKRPRANGTGSVPRTANVAAERNFYPRMTDRYPQYVYDRPYAYTGPTDNHIQSVLGPASYNLSPAHGNYFANGYQYQAPYLH 545
ME+T+SVA LI+STT+KIQQLQKAFAELESHRAV LN+KW+QLEEHFHGLEKSLKRRFN+LE QE+EY+ KT+ ARE L KREA +IAKEQASL LQEKRDAA +++ + KH+ +EP +T++ Q G VEEKPPD MA++ N + +K +N NVE +SYPQLV+LCQ DSEGLHKFIS+NRKNLA ++EEIP+AL A+ADPA LVLDSL+GFYS++ S LLGLRRTCIMLMECL LL LD+GS S VIS DVKERAK IAEEW+PKL DLD+DASNGNSLEAHAFLQL+ATFGI+SD+DQE LSK+IPMVSRR+QTADLCRSLGLS++MPGVIDVLV+NGRQIDAVNLA +FEL E++SPVSLL+SYLTEA++ +SP KS N SPTVQ EVNEREL ALKAVIKCIEDH+LE+QY +PLQK+V LEKAKADKKR TEVAKPQ KRPRANG G PR NVA ++N+YPRMTDRYPQY+YDRPY YTGPTDNH+ S+LG A+YNLSP+HGNYF NGYQYQAPYLH
Sbjct: 1 MEDTQSVAMLIDSTTSKIQQLQKAFAELESHRAVALNLKWKQLEEHFHGLEKSLKRRFNELEDQEKEYETKTMEAREMLEKREAAVIAKEQASLETLQEKRDAA-FSVIANALEKHRTFFPVEPAVITSEGQGGAPFVEEKPPDAMAAESNLEEVKNSFENGNVEVKSYPQLVKLCQEMDSEGLHKFISDNRKNLATLREEIPLALKAAADPACLVLDSLKGFYSMEMPH------SNLLGLRRTCIMLMECLSSLLTDLDLGSVSDVISEDVKERAKVIAEEWKPKLDDLDVDASNGNSLEAHAFLQLLATFGINSDFDQEKLSKLIPMVSRRRQTADLCRSLGLSDKMPGVIDVLVNNGRQIDAVNLASAFELMEQFSPVSLLKSYLTEARKVSSPVKSGNTSPTVQNEVNERELTALKAVIKCIEDHKLEEQYSREPLQKRVQLLEKAKADKKRGTEVAKPQSKRPRANGVGYGPRVTNVATDKNYYPRMTDRYPQYIYDRPYVYTGPTDNHMPSLLGSATYNLSPSHGNYFGNGYQYQAPYLH 540
BLAST of DCAR_004776 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2R6P6L9 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012} (Fragment))
HSP 1 Score: 805.053 bits (2078), Expect = 0.000e+0
Identity = 383/547 (70.02%), Postives = 463/547 (84.64%), Query Frame = 0
Match: A0A2R6P6L9 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012} (Fragment))
HSP 1 Score: 805.053 bits (2078), Expect = 0.000e+0
Identity = 383/547 (70.02%), Postives = 463/547 (84.64%), Query Frame = 0
Query: 1 MEETRSVATLIESTTTKIQQLQKAFAELESHRAVTLNMKWQQLEEHFHGLEKSLKRRFNDLEGQEQEYKNKTLRARETLVKREADIIAKEQASLNRLQEKRDAAVYAISSKTTAKHKKPCI-EPTFVTTKNQCGILLVEEKPPDIMASQDNSKSMKKFTQNVNVEGQSYPQLVRLCQANDSEGLHKFISENRKNLAAIKEEIPIALSASADPANLVLDSLQGFYSIQGAQLDGKKDSYLLGLRRTCIMLMECLRLLLATLDMGSFSYVIS-DVKERAKAIAEEWQPKLVDLDLDASNGNSLEAHAFLQLIATFGISSDYDQEVLSKMIPMVSRRQQTADLCRSLGLSERMPGVIDVLVSNGRQIDAVNLAFSFELTEKYSPVSLLESYLTEAKQTTSPSKSANASPTVQTEVNERELAALKAVIKCIEDHRLEKQYPIDPLQKQVLQLEKAKADKKRATEVAKPQPKRPRANGTGSVPRTANVAAERNFYPRMTDRYPQYVYDRPYAYTGPTDNHIQSVLGPASYNLSPAHGNYFANGYQYQAPYLH 545
ME+T+SVATLI+STT+KIQQLQKAFAELESHRAVTLN+KW+QLEEHFHGLEKSLKRRF +LE QE+EY+ KT++ARE L KREA ++AKE SL RLQEKR+AAV AI++ KH+K EP V++++Q G +VEEKPPD M +++N K M+K++ N E ++YPQLV+LCQ +SEGLHKFIS+NRK+LA ++EEIP AL A+ DPA+L+LDSL+GFYS++ + LDGKKD LLGLRRTCIMLMECL +LL LD S VI+ ++KERAKAIAE+W+PKL DLD+DASNGNSLEAHAFLQL+ATFGI SD+DQ LSK+IPMVSRR+QTADLCRSLGLSE+MPGVI+VLV+NGRQIDAVNLAF+FELTE++SP+SLL+SYLTEA++ +S KS N S TVQ EVNEREL ALKAVIKCIEDH+LE+QYP+DPLQK VLQLEK KAD KRATEVAKPQPKRPRANG G PR N +A++NFY R+TDRYPQY+YD+PY Y G TD H+ S+LG A+Y + P HGN+F NG+QYQA YLH
Sbjct: 5 MEDTQSVATLIDSTTSKIQQLQKAFAELESHRAVTLNLKWKQLEEHFHGLEKSLKRRFTELEDQEKEYETKTMKAREMLEKREAAVMAKEHTSLERLQEKRNAAVSAIAN-AFQKHRKVSFPEPVVVSSEDQGGAPIVEEKPPDAMTTENNFKDMRKYSANEIPEVKAYPQLVKLCQEMNSEGLHKFISDNRKSLATVREEIPTALKAAGDPASLILDSLKGFYSLEVSNLDGKKDPNLLGLRRTCIMLMECLSVLLTNLDPSFVSNVITGNIKERAKAIAEDWKPKLDDLDVDASNGNSLEAHAFLQLLATFGIDSDFDQVDLSKLIPMVSRRRQTADLCRSLGLSEKMPGVINVLVNNGRQIDAVNLAFAFELTEQFSPLSLLKSYLTEARKNSSAVKSGNTSSTVQNEVNERELTALKAVIKCIEDHKLEEQYPVDPLQKLVLQLEKVKADSKRATEVAKPQPKRPRANGVGHAPRVTNFSADKNFYARVTDRYPQYIYDKPYVYHGHTDAHVPSLLGSATYTVPPGHGNFFGNGFQYQATYLH 550
BLAST of DCAR_004776 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J0FSX3 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 803.897 bits (2075), Expect = 0.000e+0
Identity = 383/546 (70.15%), Postives = 459/546 (84.07%), Query Frame = 0
Match: A0A7J0FSX3 (FRIGIDA-like protein {ECO:0000256|RuleBase:RU364012})
HSP 1 Score: 803.897 bits (2075), Expect = 0.000e+0
Identity = 383/546 (70.15%), Postives = 459/546 (84.07%), Query Frame = 0
Query: 1 MEETRSVATLIESTTTKIQQLQKAFAELESHRAVTLNMKWQQLEEHFHGLEKSLKRRFNDLEGQEQEYKNKTLRARETLVKREADIIAKEQASLNRLQEKRDAAVYAISSKTTAKHKKPCIEPTFVTTKNQCGILLVEEKPPDIMASQDNSKSMKKFTQNVNVEGQSYPQLVRLCQANDSEGLHKFISENRKNLAAIKEEIPIALSASADPANLVLDSLQGFYSIQGAQLDGKKDSYLLGLRRTCIMLMECLRLLLATLDMGSFSYVIS-DVKERAKAIAEEWQPKLVDLDLDASNGNSLEAHAFLQLIATFGISSDYDQEVLSKMIPMVSRRQQTADLCRSLGLSERMPGVIDVLVSNGRQIDAVNLAFSFELTEKYSPVSLLESYLTEAKQTTSPSKSANASPTVQTEVNERELAALKAVIKCIEDHRLEKQYPIDPLQKQVLQLEKAKADKKRATEVAKPQPKRPRANGTGSVPRTANVAAERNFYPRMTDRYPQYVYDRPYAYTGPTDNHIQSVLGPASYNLSPAHGNYFANGYQYQAPYLH 545
ME+T+SVATL+ STT+KIQQLQKAFAELES+RAVTLN+KW+QLEEHFHGLEKSLKRR+ +LE QE+EY+ KT+RARE L KREA ++AKE SL RLQEKRDAAV AI++ K EP V+ ++Q G +VEEKPPD M +++N + M+K+ N E ++YPQLV+LCQ DSEGLHKFIS+NRK+L AI+EEIP AL AS DPA+L+LDSL+GFYS++ + +DGKKD LLGLRRTCIMLMECL +LL LD S VI+ ++KERAKAIAE+W+PKL DLD+DA+NGNSLEAHAFLQL+ATFGI SD+DQ LSK+IPMVSRR+QTADLCRSLGLSE+MPGVI+VLV+NGRQIDAVNLAF+FELTE++SPVSLL+SYLTEA++ +SP KS N SPTVQ EVNEREL ALKAVIKCIEDH+LE+QYP+DPLQK VLQLEK KADKKRATEVAKPQPKRPRANG G PR N A++NFY R+TDRYPQY+YD+PY Y G TD H+ S+LG A+Y + P+HG +F NG+QYQA YLH
Sbjct: 1 MEDTQSVATLMNSTTSKIQQLQKAFAELESYRAVTLNLKWKQLEEHFHGLEKSLKRRYTELEDQEKEYETKTMRAREMLEKREAAVMAKECTSLERLQEKRDAAVSAIANAVQKHRKVSFPEPAVVSREDQGGAPIVEEKPPDAMTAENNFEGMRKYFANEIPEVKAYPQLVKLCQEMDSEGLHKFISDNRKSLTAIREEIPTALKASGDPASLILDSLRGFYSMEVSNMDGKKDPNLLGLRRTCIMLMECLSILLTNLDPCFVSNVITGNIKERAKAIAEDWKPKLDDLDVDANNGNSLEAHAFLQLLATFGIDSDFDQVDLSKLIPMVSRRRQTADLCRSLGLSEKMPGVINVLVNNGRQIDAVNLAFAFELTEQFSPVSLLKSYLTEARKNSSPVKSGNTSPTVQNEVNERELTALKAVIKCIEDHKLEEQYPVDPLQKLVLQLEKVKADKKRATEVAKPQPKRPRANGVGHAPRVTNFVADKNFYARVTDRYPQYIYDKPYVYHGHTDAHVPSLLGSAAYTVPPSHGKFFGNGFQYQATYLH 546
| Match Name | Stats | Description |
|---|---|---|
| A0A5B7A4C6 | E-Value: 0.000e+0, PID: 74.73 | FRIGIDA-like protein {ECO:0000256|RuleBase:RU36401... [more] |
| A0A5B7A5R8 | E-Value: 0.000e+0, PID: 74.13 | FRIGIDA-like protein {ECO:0000256|RuleBase:RU36401... [more] |
| A0A4S4D334 | E-Value: 0.000e+0, PID: 73.86 | FRIGIDA-like protein {ECO:0000256|RuleBase:RU36401... [more] |
| A0A5B7A8Z9 | E-Value: 0.000e+0, PID: 74.41 | FRIGIDA-like protein {ECO:0000256|RuleBase:RU36401... [more] |
| A0A061DLP5 | E-Value: 0.000e+0, PID: 71.79 | FRIGIDA-like protein {ECO:0000256|RuleBase:RU36401... [more] |
| A0A6J0ZHW3 | E-Value: 0.000e+0, PID: 71.61 | FRIGIDA-like protein {ECO:0000256|RuleBase:RU36401... [more] |
| A0A7J0GRC6 | E-Value: 0.000e+0, PID: 70.13 | FRIGIDA-like protein {ECO:0000256|RuleBase:RU36401... [more] |
| A0A5J5C585 | E-Value: 0.000e+0, PID: 72.58 | FRIGIDA-like protein {ECO:0000256|RuleBase:RU36401... [more] |
| A0A2R6P6L9 | E-Value: 0.000e+0, PID: 70.02 | FRIGIDA-like protein {ECO:0000256|RuleBase:RU36401... [more] |
| A0A7J0FSX3 | E-Value: 0.000e+0, PID: 70.15 | FRIGIDA-like protein {ECO:0000256|RuleBase:RU36401... [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. |