MHGDKFDECWKFDEFSGMCEGMSDEIVVVKNESGVKVEEVNEEDEAKPIM
GSIAERRAGFDAPKIDVVRFRGVGSPVSSPSGRSPYLTIPAGISPTALLD
SPVMLLNSQAAHSSPTTGTYQSPSFNHESMMQSAAGAADTDGDCDVSSSL
SYKLAGLPCVSELADKPPIDFKCPAKYLRETATDNCATGSTAYAVNLSED
TIFNVRSTALKRSRHTNTESDQMSLFSETSNGVDTEVSRLLEGQQKEAYP
PLETLRTSEDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSLD
GQITEIIYKGAHNHPKPQPSRRAILGCQFSPKISDILSNTRGKSMGAFES
SGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPE
PPVPDIALHFERNPAARNNFMRPYVVGNLGTDMKFGAPSLYQVKLPPLPN
SMSFGSYLMNPDHTDPPAACSVSSVLPGYSFSLPMTIPGSGNINQSGVDL
SCNGKSMDSVHPFLDGQLHQNDLKFVEPKVEKDDNLYGSSLPISDQANSA
SSSMFHQINGKFPS*
Relationships |
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The polypeptide, DCAR_023855, derives from mRNA, DCAR_023855. |
Analysis Date: 2021-12-09
Analysis Name: DCAR peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 20
Match: A0A5B6ZQZ8 ((Putative WRKY transcription factor 2 {ECO:0000313|EMBL:MPA45958.1}))
HSP 1 Score: 366.696 bits (940), Expect = 1.789e-115
Identity = 221/418 (52.87%), Postives = 261/418 (62.44%), Query Frame = 0
Query: 51 GSIAERRA---GFDAPKIDVVRFRGVGSPVSSPSGRSPYLTIPAGISPTALLDSPVMLLNSQAAHSSPTTGTYQSPSFNHES-MMQSAAGAADTDGDCDVSSSLSYKL----AGLPCVSELADKPPIDFKCPAKYLRETATDNCATGSTAYAVNLSEDTIFNVRSTALKRSRHTNTESDQMSLFSETSNGVDTEVSRLLEGQQKEAYPPLETLRTSEDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSLDGQITEIIYKGAHNHPKPQPSRRAILGCQFS------------------------------------------------PKISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFER 412 GSIAERRA GF+A +I+ RFR SP+SSP+ RSPYLTIP GISPTALLDSP+ML NSQA SPTTGT+ NHES + S A D D D +SSL +K LPC+S L KP IDF+ P ++ +E AT N AT S++ + +S+D + N AL+ S HT+ S+QM E +G D RLLEG QK YPP+ RTSEDGYNWRKYGQKQVKGSE+PRSYYKCT NCQVKKKVERS DGQITEIIYKGAHNHPKPQP+RR+I+G FS ++SD LS T+GK M FES+GTPELSST ASHD D+EDGATQGS+SL +DA+DGESE KRR ++ E P AL R Sbjct: 83 GSIAERRAAKCGFNAARINTARFRST-SPLSSPAARSPYLTIPPGISPTALLDSPMMLPNSQA-QPSPTTGTFTVTPLNHESSTLNSLTPATDGDRGSD-ASSLHFKPHESPVSLPCISGLEIKPQIDFEFP-EFPKEAATKNFATESSS-DIKVSKDLVLNANCLALQ-SCHTSITSNQMPQHREPVHGDDAGAHRLLEGGQKGTYPPMGMGRTSEDGYNWRKYGQKQVKGSEFPRSYYKCTHPNCQVKKKVERSHDGQITEIIYKGAHNHPKPQPNRRSIVGSPFSFNELSDMGERNGSGGAVWRNIQLGCKDIKVDSDWRADGLERTSSTSVVTEVSDPLSTTQGKCMSLFESAGTPELSSTLASHDDDEEDGATQGSISLGDDADDGESELKRRKKDSSLIETNFPSRALREPR 494
HSP 2 Score: 191.815 bits (486), Expect = 4.017e-50
Identity = 121/315 (38.41%), Postives = 165/315 (52.38%), Query Frame = 0
Query: 259 EDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERS---LDGQITEIIYKGAHNHPKPQPSRRAILGCQFSPKISDIL---SNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFERNPAARNNFMRPYVVGNLGTDMKFGAPSLYQVKLPPLPNSMSFGSYLMNPDHTDPPAACSVSSVLPGYSFSLPMTIPGSGNINQSGVDLSCNGKSMDSVHPFLDG-QLHQNDLKFVEPKVE-KDDNLYGSSLPISDQANSASSSMFH-QINGKFPS 564 +DGY WRKYGQK VKG+ PRSYYKCT C V+K VER+ L IT Y+G HNH P A + + ++L SNTR R T + KPE V D+AL+FER P N FM+P +GN G D+KFGA +YQ+K PPLP+++ +GS+++NP+H + A S++ V+P + SLP+ IP S NI G D + +GK + S+ L G QL +ND + ++PK E KD+ LY + LP+ D AN SSS + +I FPS Sbjct: 507 DDGYRWRKYGQKVVKGNPNPRSYYKCTSAGCSVRKHVERASQNLKCVITS--YEGKHNHEVPA----ARNSSHVNSGVGNVLPAASNTR-------------------------------------------------RTLTLSTKPEAEVQDLALNFERKPELGNEFMKPNSLGNFGNDLKFGASFIYQMKFPPLPSTLPYGSFVLNPNHGETHPASSIAPVVPDFPMSLPLPIPRSANIALGGFDFNNHGKPVQSI---LGGKQLRENDTRLLKPKQEQKDECLYDTGLPVVDHANRLSSSSINCRIMRSFPS 763
Match: A0A5B6ZN82 ((Putative WRKY transcription factor 2 {ECO:0000313|EMBL:MPA45962.1}))
HSP 1 Score: 365.925 bits (938), Expect = 4.110e-115
Identity = 226/441 (51.25%), Postives = 268/441 (60.77%), Query Frame = 0
Query: 28 VVKNESGVKVEEVNEEDEAKPIMGSIAERRA---GFDAPKIDVVRFRGVGSPVSSPSGRSPYLTIPAGISPTALLDSPVMLLNSQAAHSSPTTGTYQSPSFNHES-MMQSAAGAADTDGDCDVSSSLSYKL----AGLPCVSELADKPPIDFKCPAKYLRETATDNCATGSTAYAVNLSEDTIFNVRSTALKRSRHTNTESDQMSLFSETSNGVDTEVSRLLEGQQKEAYPPLETLRTSEDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSLDGQITEIIYKGAHNHPKPQPSRRAILGCQFS------------------------------------------------PKISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFER 412 VV N SG + + GSIAERRA GF+A +I+ RFR SP+SSP+ RSPYLTIP GISPTALLDSP+ML NSQA SPTTGT+ NHES + S A D D D +SSL +K LPC+S L KP IDF+ P ++ +E AT N AT S++ + +S+D + N AL+ S HT+ S+QM E +G D RLLEG QK YPP+ RTSEDGYNWRKYGQKQVKGSE+PRSYYKCT NCQVKKKVERS DGQITEIIYKGAHNHPKPQP+RR+I+G FS ++SD LS T+GK M FES+GTPELSST ASHD D+EDGATQGS+SL +DA+DGESE KRR ++ E P AL R Sbjct: 60 VVSNGSGPVEASSKWKSLGIRLGGSIAERRAAKCGFNAARINTARFRST-SPLSSPAARSPYLTIPPGISPTALLDSPMMLPNSQA-QPSPTTGTFTVTPLNHESSTLNSLTPATDGDRGSD-ASSLHFKPHESPVSLPCISGLEIKPQIDFEFP-EFPKEAATKNFATESSS-DIKVSKDLVLNANCLALQ-SCHTSITSNQMPQHREPVHGDDAGAHRLLEGGQKGTYPPMGMGRTSEDGYNWRKYGQKQVKGSEFPRSYYKCTHPNCQVKKKVERSHDGQITEIIYKGAHNHPKPQPNRRSIVGSPFSFNELSDMGERNGSGGAVWRNIQLGCKDIKVDSDWRADGLERTSSTSVVTEVSDPLSTTQGKCMSLFESAGTPELSSTLASHDDDEEDGATQGSISLGDDADDGESELKRRKKDSSLIETNFPSRALREPR 494
HSP 2 Score: 201.83 bits (512), Expect = 1.182e-53
Identity = 127/313 (40.58%), Postives = 175/313 (55.91%), Query Frame = 0
Query: 259 EDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVER-SLDGQITEIIYKGAHNH--PKPQPSRRAILGCQFSPKISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFERNPAARNNFMRPYVVGNLGTDMKFGAPSLYQVKLPPLPNSMSFGSYLMNPDHTDPPAACSVSSVLPGYSFSLPMTIPGSGNINQSGVDLSCNGKSMDSVHPFLDG-QLHQNDLKFVEPKVE-KDDNLYGSSLPISDQAN--SASSSMFHQINGKFPS 564 +DGY WRKYGQK VKG+ PRSYYKCT C V+K VER S + + Y+G HNH P + S A G + +IL P S+T Q +++L R TN PK E VPD++ HFER P N +M P ++GN DMKFGAPS+YQ+K PPLP++M +GS++ NP+H + +A S++ V+P + SLP+ I S N+ D + +GK + V FL G QL +ND++ ++PK E KDD LY + LPI D AN S+SSS++ +I G +PS Sbjct: 507 DDGYRWRKYGQKVVKGNPNPRSYYKCTSAGCSVRKHVERASQNLKCVITTYEGKHNHEVPAARNSGHANSG------VGNIL----------------PAASNT-------------QPALTLP------------RNTNVPKLETQVPDLSFHFERKPELGNEYMGPSLLGNFRNDMKFGAPSIYQMKFPPLPSTMPYGSFIPNPNHGETHSASSIAPVVPDFQMSLPLPISRSVNMALGAFDFNNHGKPIGPVQSFLGGQQLRENDIRLLKPKQEQKDDGLYDTRLPIVDHANGSSSSSSVYCRIMGNYPS 772
Match: A0A5J5B8B9 ((Uncharacterized protein {ECO:0000313|EMBL:KAA8538878.1}))
HSP 1 Score: 343.584 bits (880), Expect = 1.466e-106
Identity = 211/409 (51.59%), Postives = 247/409 (60.39%), Query Frame = 0
Query: 45 EAKPIMGSIAERRA---GFDAPKIDVVRFRGVGSPVSSPSGRSPYLTIPAGISPTALLDSPVMLLNSQAAHSSPTTGTYQSPSFNHESMM-QSAAGAADTDGDCDVSSSLSYKLAGLP----CVSELADKPPIDFKCPAKYLRETATDNCATGSTAYAVNLSEDTIFNVRSTALKRSRHTNTESDQMSLFSETSNGVDTEVSRLLEGQQKEAYPPLETLRTSEDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSLDGQITEIIYKGAHNHPKPQPSRRAI---------------------------------LGCQ--------------------FSPKISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRR 392 EA GSIAERRA GF+A +I+ FR S + RSPYLTIP GISPTALLDSP+ML NSQA SPTTGT+ P NHES+M S A D D DV SSL +K G P C+S L +P +DF+ ++ +E A NCAT +A + + ++ I N AL+ S HT +QM + + D + LLEG QK YPP+ RTSEDGYNWRKYGQKQVKGSEYPRSYYKCT NCQVKKKVERS DGQITEIIYKGAHNHPKPQP+RR++ LGC+ +ISD LS T+GKSMG FES GTPELSST ASHD D+EDGATQGS+SL +DA+DGESE KRR Sbjct: 68 EASSSGGSIAERRAAKCGFNAARINTALFRSSSPLSSP-AARSPYLTIPPGISPTALLDSPIMLPNSQA-QPSPTTGTFMVPPLNHESLMLHSVTSATDGDRGSDVGSSLKFKPHGSPVSLTCISGLEIQPHMDFEF-LEFPKEAAKKNCATELSA-DIEVPKNLILNANCLALQ-SCHTGITGNQMPQHRKPVHEEDAG-AHLLEGDQKGTYPPVAVARTSEDGYNWRKYGQKQVKGSEYPRSYYKCTHPNCQVKKKVERSHDGQITEIIYKGAHNHPKPQPNRRSMVGSPFSFSEMTEMGERNGSGVKVEGGAVWRNIQLGCKDIKVDSDWRADGLERTSSTSVVTEISDPLSTTQGKSMGVFESVGTPELSSTLASHDDDEEDGATQGSISLGDDADDGESELKRR 470
HSP 2 Score: 199.134 bits (505), Expect = 1.217e-52
Identity = 117/293 (39.93%), Postives = 159/293 (54.27%), Query Frame = 0
Query: 259 EDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVER-SLDGQITEIIYKGAHNHPKPQPSRRAILGCQFSPKISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFERNPAARNNFMRPYVVGNLGTDMKFGAPSLYQVKLPPLPNSMSFGSYLMNPDHTDPPAACSVSSVLPGYSFSLPMTIPGSGNINQSGVDLSCNGKSMDSVHPFLDG-QLHQNDLKFVEPKVE-KDDNLYGSSLPISDQAN 548 +DGY WRKYGQK VKG+ PRSYYKCT C V+K VER S D + Y+G HNH P + + +IL P S+T Q S++L R N PK E VPD++L FER P FMR ++G+ G DMKFGAPS+Y++K PPLP++M +GS+L N +H + +A S++ V+P + SLP+ IP S N+ D + +GK + SV F+ G QL +ND++ ++PK E KDD LY + LPI D AN Sbjct: 503 DDGYRWRKYGQKVVKGNPNPRSYYKCTSAGCSVRKHVERASQDLKCVITTYEGKHNHEVPAARNSG----HANSGVGNIL----------------PAASNT-------------QPSLTLT------------RNANVPKLETQVPDLSLRFERKPKLGTEFMRTGLLGDFGNDMKFGAPSIYRMKFPPLPSTMPYGSFLPNLNHGESHSASSIAPVVPDFPMSLPLAIPQSVNMALGAFDFNNHGKPIGSVQSFIGGQQLRENDIRLLKPKQEQKDDGLYDTRLPIVDHAN 750
Match: A0A5B6ZR04 ((Putative WRKY transcription factor 2 isoform X1 {ECO:0000313|EMBL:MPA45956.1}) (Fragment))
HSP 1 Score: 321.242 bits (822), Expect = 1.285e-101
Identity = 192/375 (51.20%), Postives = 227/375 (60.53%), Query Frame = 0
Query: 51 GSIAERRA---GFDAPKIDVVRFRGVGSPVSSPSGRSPYLTIPAGISPTALLDSPVMLLNSQAAHSSPTTGTYQSPSFNHESMM-QSAAGAADTDGDCDVSSSLSYKLAGLP----CVSELADKPPIDFKCPAKYLRETATDNCATGSTAYAVNLSEDTIFNVRSTALKRSRHTNTESDQMSLFSETSNGVDTEVSRLLEGQQKEAYPPLETLRTSEDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSLDGQITEIIYKGAHNHPKPQPSRRAI---------------------------------LGCQ--------------------FSPKISDILSNTRGKSMGAFESSGTPELSSTFASHD 364 GSIAERRA GF+A +I + RFR SP+SSP+ RSPYLTIP GISPTALLDSP+ML NSQA SPTTGT+ P+ NHES+M S AAD D DV S L + G P C+ +L +P +DF+ P K+ +E+AT NC+T S+A +S+D + N LK S HT +QM E + D LLEG +K YPP+ +RTSED YNWRKYGQKQVKGSEYPRSYYKCT NC+VKKKVERS DGQITEIIYKGAHNHPKPQP+RR+I LGC+ +ISD LS T+GKS+G FES GTPE SST ASHD Sbjct: 72 GSIAERRAAKCGFNAARISMARFRST-SPLSSPAARSPYLTIPPGISPTALLDSPIMLPNSQA-QPSPTTGTFTLPTLNHESLMLSSVTSAADGDRGNDVGSFLKFNPHGSPVSLQCILDLEVQPQMDFEFP-KFSKESATKNCSTESSADK-KVSKDMVLNANCLTLK-SCHTGISGNQMPQHREPVHEEDAGSHHLLEGDEKGTYPPMGMVRTSEDVYNWRKYGQKQVKGSEYPRSYYKCTHPNCKVKKKVERSHDGQITEIIYKGAHNHPKPQPNRRSIGGSPFSFNEMAEMGERIGSGVKVEGGAVWRNIQLGCKDIKVDSDWRADGLERTSSTSVVTEISDPLSTTQGKSIGVFESVGTPEHSSTLASHD 441
Match: A0A5B6ZR97 ((Putative WRKY transcription factor 2 {ECO:0000313|EMBL:MPA45961.1}))
HSP 1 Score: 316.235 bits (809), Expect = 5.924e-96
Identity = 200/423 (47.28%), Postives = 246/423 (58.16%), Query Frame = 0
Query: 51 GSIAERRA---GFDAPKIDVVRFRGVGSPVSSPSGRSPYLTIPAGISPTALLDSPVMLLNSQAAHSSPTTGTYQSPSFNHESMM-QSAAGAADTDGDCDVSSSLSYKLAGLP----CVSELADKPPIDFKCPAKYLRETATDNCATGSTAYAVNLSEDTIFNVRSTALKRSRHTNTESDQMSLFSETSNGVDTEVSRLLEGQQKEAYPPLETLRTSEDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSLDGQITEIIYKGAHNHPKPQPSRRAILGCQFSPK---------------------------ISDILSNTRGKSMGAFESSGT---PELSSTFASHDG-----------------------DDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFER 412 GSIAERRA GF+A +I + RFR SP+SSP+ RSPYLTIP GISPTALLDSP+ML NSQA SPTTGT+ P+ N ES+M S AA+ D DV S L + G P C+ +L +P +DF+ P K+ +E+AT NC+T S+A +S+D + N LK S HT +QM E + D LLEG +K YPP+ +RTSED YNWRKYGQKQVKGSEYPRSYYKCT NC+VKKKVERS DGQITEIIYKGAHNHPKPQP+RR+I G FS DI ++ ++ G +S T E+S ++ G D+EDGATQGS+SL +DA+DGESE KRR ++ E P AL R Sbjct: 82 GSIAERRAAKCGFNAARISMARFRST-SPLSSPAARSPYLTIPPGISPTALLDSPIMLPNSQA-QPSPTTGTFTLPTLNQESLMLSSVTSAANGDRGNDVGSFLKFNPHGSPVSLQCILDLEVQPQMDFEFP-KFSKESATKNCSTESSADK-KVSKDMVLNANCLTLK-SCHTGISGNQMPQHREPVHEEDAGSHHLLEGDEKGTYPPMGMVRTSEDVYNWRKYGQKQVKGSEYPRSYYKCTHPNCKVKKKVERSHDGQITEIIYKGAHNHPKPQPNRRSIGGSPFSFNEMAEMGERIGSGVKVEGGAVWRNIQLGCKDIKVDSDWRADGLERTSSTSVVTEISDPLSTTQGKSIGVFESVGTPEHSSTLASHDDDEEDGATQGSISLGDDADDGESELKRRKKDSSLIETNFPSRALREPR 499
HSP 2 Score: 202.216 bits (513), Expect = 1.003e-53
Identity = 124/311 (39.87%), Postives = 172/311 (55.31%), Query Frame = 0
Query: 259 EDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVER-SLDGQITEIIYKGAHNHPKPQPSRRAILGCQFSPKISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFERNPAARNNFMRPYVVGNLGTDMKFGAPSLYQVKLPPLPNSMSFGSYLMNPDHTDPPAACSVSSVLPGYSFSLPMTIPGSGNINQSGVDLSCNGKSMDSVHPFLDG-QLHQNDLKFVEPKVE-KDDNLYGSSLPISDQAN--SASSSMFHQINGKFPS 564 +DGY WRKYGQK VKG+ PRSYYKCT C V+K VER S + + Y+G HNH P + + +IL P S+T Q +++L R TN PK E VPD++ HFER P N +M P ++GN DMKFGAPS+YQ+K PPLP++M +GS++ NP+H + +A S++ V+P + SLP+ I S N+ D + +GK + V FL G QL +ND++ ++PK E KDD LY + LPI D AN S+SSS++ +I G +PS Sbjct: 512 DDGYRWRKYGQKVVKGNPNPRSYYKCTSAGCSVRKHVERASQNLKCVITTYEGKHNHEVPAARNSG----HANSGVGNIL----------------PAASNT-------------QPALTLP------------RNTNVPKLETQVPDLSFHFERKPELGNEYMGPSLLGNFRNDMKFGAPSIYQMKFPPLPSTMPYGSFIPNPNHGETHSASSIAPVVPDFQMSLPLPISRSVNMALGAFDFNNHGKPIGPVQSFLGGQQLRENDIRLLKPKQEQKDDGLYDTRLPIVDHANGSSSSSSVYCRIMGNYPS 777
Match: A0A650C3B5 ((WRKY transcription factor 12 {ECO:0000313|EMBL:QGQ64035.1}))
HSP 1 Score: 307.76 bits (787), Expect = 6.146e-93
Identity = 194/419 (46.30%), Postives = 237/419 (56.56%), Query Frame = 0
Query: 49 IMGSIAERRA---GFDAPKIDVVRFRGVGSPVSSPSGRSPYLTIPAGISPTALLDSPVMLLNSQAAHSSPTTGTYQSPSFNHESMMQSAAGAADTDGDCDVSSSLSYKLAG-------LPCVSELADKPPID------------FKCPAKYLRETATDNCATGSTAYAVNLSEDTIFNVRSTALKRSRHTNTESDQMSLFSETSNGVDTEVSRLLEGQQKEAYPPLETLRTSEDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSLDGQITEIIYKGAHNHPKPQPSRRAILGCQFSPK--------------------------------------------------ISDI---LSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRR 392 + GSIAERRA GF+A +I RFR SP++SP+ RSP LTIP GISPTALLDSP+ML NSQA SPTTG++Q P NHE M + + D + +V SS +K G P + A + ID F+ P L+E ++ A GS + +S D I N + H++ DQ E + D LEG+Q+EA P +R+SEDGYNWRKYGQKQVKGSEYPRSYYKCT NCQVKKKVERS DGQITEIIYK AHNHPKPQPSRR+ LG FS ++D+ +S T+GKS+GAFES+ TPELSST ASHD D+ED ATQGS+SL +DA++ ESESKRR Sbjct: 65 VRGSIAERRAAKCGFNAVRISTPRFRTT-SPLASPAARSPCLTIPPGISPTALLDSPIMLANSQA-QPSPTTGSFQLPPLNHECPMLNPVSSGDGNRSNNVGSSFRFKPHGNHIPFPHYPGLESEALETSIDYQPAEPANQSTNFEFPVDLLKEANAEDHAIGS-PNDLKISSDMIVNANCIPFQTC-HSDVAPDQFFQQKEPIDVEDVGTHNTLEGEQREACPTAGIVRSSEDGYNWRKYGQKQVKGSEYPRSYYKCTHPNCQVKKKVERSHDGQITEIIYKAAHNHPKPQPSRRSALGSGFSSNEMAEMAGGSGSCDKAEGWSVSANFQPGSREIKVSSNWRGDGLERTSSTSVVTDLSDPISTTQGKSVGAFESADTPELSSTLASHD-DEEDQATQGSISLGDDADEDESESKRR 478
HSP 2 Score: 160.999 bits (406), Expect = 1.897e-39
Identity = 110/310 (35.48%), Postives = 158/310 (50.97%), Query Frame = 0
Query: 259 EDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERS---LDGQITEIIYKGAHNHPKPQPSRRAILGCQFSPKISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFERNPAARNNFMRPYVVGNLGTDMKFGAPSLYQVKLPPLPNSMSFGSYLMNPDHTDPPAACSVSSVLPGYSFSLPMTIPGSGNINQSGVDLSCNGKSMDSVHPFLDG-QLHQNDLKFVEPKVE-KDDNLYGSSLPISDQANSASSSMFHQINGKFP 563 +DGY WRKYGQK VKG+ PRSYYKCT C V+K VER+ L IT Y+G HNH P + SN+ G ++ P +S A+ ++L R KPE + D+ HFER P +F+RP GN DMKFGA SL+Q++ PPL N M +GS+ +NP+ T + + +P + S+PM P S N+ D + +GK + V P + G QL + D++F+ PK E KD+NLYG++ + +S+S+S++ QI G +P Sbjct: 511 DDGYRWRKYGQKVVKGNPNPRSYYKCTSAGCSVRKHVERASHNLKSVIT--TYEGKHNHEVPAARNSS-------------QSNSNGANL-------PPPVSHASAN-------------LTLP------------RNATIAKPETSIQDLVPHFERKPEFNTDFLRPSFFGN---DMKFGASSLHQMRFPPLQNPMPYGSFGLNPNIT---SQTHSMTHVPDFPMSMPMGFPQSANVGPGSFDFNSHGKPISLVQPLVGGQQLKETDMRFIRPKQEQKDENLYGTN---ASSTSSSSASLYCQIMGSYP 764
Match: A0A386IPT2 ((WRKY transcription factor 55 {ECO:0000313|EMBL:AYD59714.1}) (WRKY transcription factor SUSIBA2-like {ECO:0000313|RefSeq:XP_015875770.1}))
HSP 1 Score: 305.834 bits (782), Expect = 1.749e-92
Identity = 193/405 (47.65%), Postives = 234/405 (57.78%), Query Frame = 0
Query: 55 ERRA---GFDAPKIDVVRFRGVGSPVSSPSGRSPYLTIPAGISPTALLDSPVMLLNSQAAHSSPTTGTYQSPSFNHESMMQSAAGAADTD---------GDCD---VSSSLSYKLAGLPCVSELADKPPIDFKCPAKYLRETATDNCATGSTAYAVNLSEDTIFNVRSTALKRSRHTNTESDQMSLFSETSNGVDTEVSRLLEGQQKEAYPPLETLRTSEDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSLDGQITEIIYKGAHNHPKPQPSRRAILGCQFS-------------------------------------------------PKISDI---LSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRR 392 ERRA GF+A +I RFR SP++SP+ RSP LTIP GISPTALLDSP+ML NSQA SPTTGT+ PSF HES + ++ D D GD SS + + + + ++P +DF+ PA++ E + C S+ V +S I N +R + +DQ L E ++ DT L EG QK +YP + ++TSEDGYNWRKYGQKQVKGSEYPRSYYKCT NCQVKKKVERS DGQITEIIYKGAHNH KPQP+RRA LG FS I+D+ LS T+GKS+G FES+ TPELSST ASHD D+EDGATQGS+ L EDA+D ESESKRR Sbjct: 43 ERRAAKCGFNAERISTARFRTT-SPLASPAARSPCLTIPPGISPTALLDSPIMLPNSQAL-PSPTTGTFPLPSFYHESSILNSMTREDGDKGSFRFKPHGDVKHLSRHSSFENQQVEVDYQALVLEQPQMDFEFPAEFPGEATSKYCVVNSSN-DVKVSNSMIINANCVNQQRCP-VDMATDQTLLSREPTHHEDTGTDNLSEGNQKGSYPSVGMVKTSEDGYNWRKYGQKQVKGSEYPRSYYKCTHPNCQVKKKVERSHDGQITEIIYKGAHNHAKPQPNRRAALGSTFSLDEMSEMGEGSGTCVKVEGGSVWTNIQSTTEIRHGSEGRTDGLERTSSTSVITDLSDPLSTTQGKSVGVFESAETPELSSTLASHD-DEEDGATQGSILLGEDADDEESESKRR 442
HSP 2 Score: 184.496 bits (467), Expect = 1.375e-47
Identity = 114/308 (37.01%), Postives = 160/308 (51.95%), Query Frame = 0
Query: 259 EDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVER-SLDGQITEIIYKGAHNHPKPQPSRRAILGCQFSPKISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFERNPAARNNFMRPYVVGNLGTDMKFGAPSLYQVKLPPLPNSMSFGSYLMNPDHTDPPAACSVSSVLPGYSFSLPMTIPGSGNINQSGVDLSCNGKSMDSVHPFLDG-QLHQNDLKFVEPKVE-KDDNLYGSSLPISDQANSASSSMFHQINGKFP 563 +DGY WRKYGQK VKG+ PRSYYKCT C V+K VER S + + Y+G HNH P S+ S G+ A G SL R + PKPE V D+A F+R P N ++RP GN DMKFGAPS+YQ+K PPL MS+ S+ +NP+ A S++ V+P + SLP+ +P SG+++ G D + +GK SV P L G QL ++D+KF+ PK E KDDN+Y + ++ ++ +SSS+++++ G FP Sbjct: 475 DDGYRWRKYGQKVVKGNPNPRSYYKCTSAGCSVRKHVERASHNLKCVITTYEGKHNHEVPAARN-----------------------------------SNHINSSSGNVPPAAANGQPSL-----------TVRNAHIPKPETQVQDLAPQFDRKPEFSNEYLRPTFPGNFANDMKFGAPSIYQMKFPPLQGVMSYASFGLNPNRNTTQQAGSIAPVMPDFPMSLPLNLPSSGSLSMVGFDFN-SGKQFASVQPILSGQQLQESDMKFLRPKQEQKDDNIYDAL--ATNASSLSSSSVYNRVMGNFP 733
Match: A0A200R8T7 ((DNA-binding WRKY {ECO:0000313|EMBL:OVA19096.1}))
HSP 1 Score: 303.523 bits (776), Expect = 4.898e-91
Identity = 194/421 (46.08%), Postives = 241/421 (57.24%), Query Frame = 0
Query: 51 GSIAERRA---GFDAPKIDVVRFRGVGSPVSSPSGRSPYLTIPAGISPTALLDSPVMLLNSQAAHSSPTTGTYQSPSFNHE-SMMQSAAGAADTDGDCDVSSSLSYK-------LAGLPCVSELAD---------------KPPIDFKCPAKYLRETATDNCATGSTAYAVNLSEDTIFNVRSTALKRSRHTNTESDQMSLFSETSNGVDTEVSRLLEGQQKEAYPPLETLRTSEDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSLDGQITEIIYKGAHNHPKPQPSRRAILGCQFSP-----------------------------------------------------KISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRR 392 GSIAERRA GF+AP I+ RFR + SP++SPS RSPY+TIPAG+SPT LLDSPVML NSQ A SPTTGTY+ PS +HE ++ SA + D DV SS +K L G + +P +D+ +L++T T N A S + +++ +TI N++ AL+ S+ + +DQ + E G D++ +LLEG QK AY R +EDGYNWRKYGQKQVKGSEYPRSYYKCT NCQVKKKVERS DG IT+IIYK HNH +PQP+RR+ LG FSP ++SD LS + K +G ES TPELSST ASHD +DED ATQGS+SL +DAEDGESESKRR Sbjct: 86 GSIAERRAARCGFNAPSINTARFRTI-SPLASPSSRSPYITIPAGLSPTTLLDSPVMLPNSQ-AQPSPTTGTYRFPSQSHEITVPISATCKVEKDEGEDVDSSFMFKPHVNPIHLQGFSDTQNQSQDVGMANVNHQVFAPLQPQMDYDSQNGFLKQTMTKNYAASSLS-DIDVPNNTIVNMKCLALQTSQ-ASVATDQATRLDEHVLGEDSK--QLLEGDQKGAYHVSGLGRPTEDGYNWRKYGQKQVKGSEYPRSYYKCTHPNCQVKKKVERSRDGHITKIIYKADHNHQQPQPNRRSALGSAFSPNEISETGEDPGSYIKVEGGSVWRNLPHGSKDNKVGSDWRVDGLERTSSTSVVTELSDHLSTAQAKHLGILESVDTPELSSTLASHD-EDEDRATQGSISLGDDAEDGESESKRR 499
HSP 2 Score: 164.851 bits (416), Expect = 1.234e-40
Identity = 110/308 (35.71%), Postives = 151/308 (49.03%), Query Frame = 0
Query: 259 EDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVER-SLDGQITEIIYKGAHNHPKPQPSRRAILGCQFSPKISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFERNPAARNNFMRPYVVGNLGTDMKFGAPSLYQVKLPPLPNSMSFGSYLMNPDHTDPPAACSVSSVLPGYSFSLPMTIPGSGNINQSGVDLSCNGKSMDSVHPFLDGQL-HQNDLKFVEPKVE-KDDNLYGSSLPISDQANSASSSMFHQINGKFP 563 +DGY WRKYGQK VKG+ PRSYYKCT C V+K VER S D + Y+G HNH P +R + S + SN A SSG P ST + R PKPEP + D+ FER P N F +P +G TDMKFG + Y++KLPP +M GS+ +NP+ ++ S+ V+P + SLP+ P S N+ + D + +GK + V PFL Q + D++F+ PK E KDD + S ++ AN++ S M + G FP Sbjct: 532 DDGYRWRKYGQKVVKGNPNPRSYYKCTNAGCSVRKHVERASHDLKYVITTYEGKHNHEVPA-ARNS----------SHVNSNN------ANGSSGNPSAQSTM----------------------------TLPRNATIPKPEPQLQDLVPRFERKPQLSNEFFKPSNLGGFATDMKFGPSACYEMKLPPFQTAMPCGSFGLNPNVSEVHHTTSIPQVVPEFPISLPINFPLSTNLEFTSFDFNNHGKPVVPVQPFLGVQQPKEEDMRFLRPKQEQKDDTSFES---MNHLANASPSVMCRRFMGGFP 791
Match: A0A7J7I598 ((Uncharacterized protein {ECO:0000313|EMBL:KAF5959288.1}))
HSP 1 Score: 299.286 bits (765), Expect = 3.406e-90
Identity = 185/385 (48.05%), Postives = 220/385 (57.14%), Query Frame = 0
Query: 51 GSIAERRA---GFDAPKIDVVRFRGVGSPVSSPSGRSPYLTIPAGISPTALLDSPVMLLNSQAAHSSPTTGTYQSPSFNHESMM-QSAAGAADTDGDCDVSSSLSYKLAGLPCVSELADKPPIDFKCPAKYLRETATDNCATGSTAYAVNLSEDTIFNVRSTALKRSRHTNTESDQMSLFSETSNGVDTEVSRLLEGQQKEAYPPLETLRTSEDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSLDGQITEIIYKGAHNHPKPQPSRRAILGCQFS--PKISD------------------------------------ILSNTRGKSMGA-FESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRR 392 GSIAERRA GF++P+I+ V R P++SP+ RS Y+TIPAGISPTALL SP+ML NSQA SPTTGT+QSP NH S+M S ADTD D SS ++ G P A+ C +G + +S HT T +QM SE +G D V LLEG QK YP +E ++TSEDGYNWRKYGQKQVKGSEYPRSYYKCT CQVKKKVERS DGQITEIIYKGAH HPKPQP+R + LG FS K+S+ ++S +GKS+G FES GTPELSS ASH+ D+EDGAT GS+ +DA+D E E KRR Sbjct: 79 GSIAERRATTCGFNSPRINTVGLRSTSPPLTSPAARSSYITIPAGISPTALLGSPIMLSNSQA-EPSPTTGTFQSPFPNHGSLMLDSTTPDADTDRGSDDDSSFRFQPHGSP-----------------------ASLTCTSGLES-------------------KSCHTGTAGEQMPQHSEPIHGGDEGVHHLLEGDQKGTYPTMEAVKTSEDGYNWRKYGQKQVKGSEYPRSYYKCTNPYCQVKKKVERSHDGQITEIIYKGAHCHPKPQPNRHSALGYSFSYNEKMSEETGEVNGSCVKIGSEWRADGFKRTSSTSALTEISNPLMSTAQGKSLGVLFESVGTPELSSMLASHNDDNEDGATHGSICRGDDADDNELELKRR 420
HSP 2 Score: 149.828 bits (377), Expect = 1.006e-35
Identity = 113/314 (35.99%), Postives = 149/314 (47.45%), Query Frame = 0
Query: 260 DGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSL-DGQITEIIYKGAHNHPKPQPSRRAILGCQFSPKISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFERNPAARNNFMR-PYVVGNLGTDMKFGAPSLYQVKLPPLPNSMSFGSYLMNPDHTDPPAACSVSSVLPGYSFSLPMTIPGSGNINQSGVDLSCN-GKSMDSVHPFLDGQLHQNDLKFVEPKVEKDDNLYGSSLPISDQAN------SASSSMFHQINGKFPS 564 DGY WRKYGQK VKG+ PRSYYKCT C V+K VER+ D + Y+G HNH P + S IL TP +SST + D N+PKPE D + F RN N F+R P ++GN G+D+KFG S+YQ+K P L NSM +GS+++NP H+ AA S++ V+P + SLP+TI S + G S N GKS V L GQ + E LY + LPI + +N S+SSS++ + G FPS Sbjct: 454 DGYRWRKYGQKVVKGNPNPRSYYKCTSPGCSVRKHVERACRDLKSVITAYEGKHNHEVPVAKNSGHVNSG-----SGIL---------------TPTVSSTLPTLTFPKND-------------------------NSPKPEAHAQD-QICFARNLDPGNQFLRRPSLLGNFGSDVKFGVSSMYQMKFPFLQNSMPYGSFVLNPTHSGMQAAGSIAPVVPDFPMSLPLTIRQSARVAPGGFSCSNNHGKSFGPVQSCLGGQ------QLRESNTGDGSCLYETHLPIMNHSNLLSSSSSSSSSVYSRFKGSFPS 715
Match: A0A061F5S4 ((WRKY DNA-binding protein 2, putative isoform 2 {ECO:0000313|EMBL:EOY09879.1}))
HSP 1 Score: 291.967 bits (746), Expect = 3.192e-87
Identity = 191/427 (44.73%), Postives = 234/427 (54.80%), Query Frame = 0
Query: 52 SIAERRA---GFDAPKIDVVRFRGVGSPVSSPSGRSPYLTIPAGISPTALLDSPVMLLNSQAAHSSPTTGTYQSPSFNHESMMQSAAGAADTDGDCDVSSSLSYKLAGL---PCVSELADK----------------------PPIDFKCPAKYLRETATDNCATGSTAYAVNLSEDTIFN--VRSTALKRSRHTNTESDQMSLFSETSNGVDTEVSRLLEGQQKEAYPPLETLRTSEDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVERSLDGQITEIIYKGAHNHPKPQPSRRAILGCQFSP-KISDI----------------------------------------------------LSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEED-AEDGESESKRRTT 394 SIAERRA GF A +I RFR SP++SPS RSPYLTIP GISPTALLDSP+ML N+Q SPTTGT+ P NH+S + + + D ++ SS ++K L P S L D+ PP+DF+ PA++ ++ ++ N A AV++++ + N V A + SD+M + E G D + L EG QK + RTSEDGYNWRKYGQKQVKGSEYPRSYYKCT NCQVKKKVERSLDGQITEIIYKGAHNHPKP P RR +G S ++S+I LS +GKS GAFE + TPE SST ASHD D++D ATQGS+SL +D A D ESESKRR T Sbjct: 45 SIAERRAATCGFKAERISTARFRASTSPLASPSARSPYLTIPPGISPTALLDSPIMLPNAQV---SPTTGTFPVPFLNHDSQVLNPSNG---DRGSNIVSSFTFKPQNLDSQPSFSSLEDQVSSSFNLVQSAEVHCQRLAKLEPPLDFEFPAEFSKKASSMNSA------AVSVADVKVLNDIVNDNANLGFHPSELASDEMPMPKEPLLGQDVN-THLSEGDQKGINTAMGMARTSEDGYNWRKYGQKQVKGSEYPRSYYKCTHPNCQVKKKVERSLDGQITEIIYKGAHNHPKPLPCRRPSIGSTLSSDEMSEIAEGGGTCVKVEGGLIWRNAQAGSRDIKLGSDWRADGLERTSSTSVVTDLSDPLSTAQGKSFGAFELAETPEFSSTLASHDDDNDDRATQGSISLCDDAANDDESESKRRKT 458
HSP 2 Score: 148.673 bits (374), Expect = 3.149e-35
Identity = 93/281 (33.10%), Postives = 137/281 (48.75%), Query Frame = 0
Query: 259 EDGYNWRKYGQKQVKGSEYPRSYYKCTQQNCQVKKKVER-SLDGQITEIIYKGAHNHPKPQPSRRAIL---GCQFSPKISDILSNTRGKSMGAFESSGTPELSSTFASHDGDDEDGATQGSVSLEEDAEDGESESKRRTTNAPKPEPPVPDIALHFERNPAARNNFMRPYVVGNLGTDMKFGAPSL---YQVKLPPLPNSMSFGSYLMNPDHTDPPAACSVSSVLPGYSFSLPMTIPGSGNINQSGVDLSCNGKSMDSVHPFLDG-QLHQNDLKFVEPKVE 531 +DGY WRKYGQK VKG+ PRSYYKCT C V+K VER S + + Y G HNH P + + GC P + + TQ +++L R TNA KPE P+ DI F++ P +N ++RP + + +MK GA SL YQ+K P + N++ +GS+ +NP+ + S++S +P + SLP+ P S N++ +G D++ GKS H FL G QL ++ +F+ K E Sbjct: 489 DDGYRWRKYGQKVVKGNPNPRSYYKCTTPGCPVRKHVERASHNLKCVLTTYDGKHNHEVPAARSSSHVNSSGCNLPPTVPN------------------------------------TQAALALA------------RNTNALKPETPIQDIVPPFDQKPEFKNEYLRPSFLRDFSNEMKLGAASLASVYQMKFPSIQNTIPYGSFGVNPNCIAAHQSGSLASTVPNFPMSLPLNHPTSANLSLAGFDINNGGKSTGPTHSFLPGQQLKESTTRFLGIKQE 721
Match Name | Stats | Description |
---|---|---|
A0A5B6ZQZ8 | E-Value: 1.789e-115, PID: 52.87 | (Putative WRKY transcription factor 2 {ECO:0000313... [more] |
A0A5B6ZN82 | E-Value: 4.110e-115, PID: 51.25 | (Putative WRKY transcription factor 2 {ECO:0000313... [more] |
A0A5J5B8B9 | E-Value: 1.466e-106, PID: 51.59 | (Uncharacterized protein {ECO:0000313|EMBL:KAA8538... [more] |
A0A5B6ZR04 | E-Value: 1.285e-101, PID: 51.20 | (Putative WRKY transcription factor 2 isoform X1 {... [more] |
A0A5B6ZR97 | E-Value: 5.924e-96, PID: 47.28 | (Putative WRKY transcription factor 2 {ECO:0000313... [more] |
A0A650C3B5 | E-Value: 6.146e-93, PID: 46.30 | (WRKY transcription factor 12 {ECO:0000313|EMBL:QG... [more] |
A0A386IPT2 | E-Value: 1.749e-92, PID: 47.65 | (WRKY transcription factor 55 {ECO:0000313|EMBL:AY... [more] |
A0A200R8T7 | E-Value: 4.898e-91, PID: 46.08 | (DNA-binding WRKY {ECO:0000313|EMBL:OVA19096.1})[more] |
A0A7J7I598 | E-Value: 3.406e-90, PID: 48.05 | (Uncharacterized protein {ECO:0000313|EMBL:KAF5959... [more] |
A0A061F5S4 | E-Value: 3.192e-87, PID: 44.73 | (WRKY DNA-binding protein 2, putative isoform 2 {E... [more] |
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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. |