Resource Type:
Polypeptide
Name:
DCAR_002537
Identifier:
DCAR_002537.mRNA-protein
Sequence:
MGFTSKSSPVRHCIAYGENAPISDIIDFIAAAQIAENSEKNVQISNYGDD
EKNADASTETLFGTLNNTLRLLEMGFSEKDISAAIDMCGSKASVEELADS
IVSGQIGKYTYNPSWKRNASSSRSLYGMNGQGTMRYDDLTIKTEDTSPVS
HSEFSSNGMMESCKGKRPKEGYIDESSSSKRLKEEYEDDSGAALPPWLEA
RQAISKTSSSRLAQKQRKPRLTGESISLPKPVSCKSLDRMVAGPPYFFYG
NVLNLSQDSWIKISQFLYAVEPEFVNTQFFSAFSRKEGYVHNLPNENRFH
LIPRSPMTIEEVIPSTKKWWPPWDTRKQISCINTDLTGISQQCNRLESLL
NDYGGLLSIDQQTDLLHRCKIYNLVWVGHNKLKPIEPEHIERILGYPVNH
TQAAGFSMHDRLQALKHSFQIDTLGYHLSVLKTMFPEGLTLLSLYSGVGG
AEITLDRLGIRLKGVVSVETCEIKRKILKQWWSNSGQVGDLVQIEDIQKL
SSSKFEILKQRFGGFDLVICQTPSTYNPKCPTIEDHGNISGLDFSMFYEF
VRILQRVKSMMGNSR*
Sequence Length:
566
Sequence Checksum:
bedd0e0e55ebe0eb034e57c0b3ea8301
View location in JBrowse:
Organism:
Relationship:
| Relationships |
|---|
| The polypeptide, DCAR_002537, derives from mRNA, DCAR_002537. |
Blast Results:
The following BLAST results are available for this feature:
BLAST of DCAR_002537 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_002537 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B6YUI6 ((Putative DNA (Cytosine-5)-methyltransferase DRM2 isoform X2 {ECO:0000313|EMBL:MPA35562.1}))
HSP 1 Score: 675.626 bits (1742), Expect = 0.000e+0
Identity = 343/569 (60.28%), Postives = 423/569 (74.34%), Query Frame = 0
Match: A0A5B6YUI6 ((Putative DNA (Cytosine-5)-methyltransferase DRM2 isoform X2 {ECO:0000313|EMBL:MPA35562.1}))
HSP 1 Score: 675.626 bits (1742), Expect = 0.000e+0
Identity = 343/569 (60.28%), Postives = 423/569 (74.34%), Query Frame = 0
Query: 17 GENAPISDIIDFIAAAQIAENSEKNVQISNYGDDEKNADASTETLFGTLNNTLRLLEMGFSEKDISAAIDMCGSKASVEELADSIVSGQ-----IGKYTYNP-SWKRNASSSRSLYGMNGQGT------MRYDDLTIKTEDTSPVSHSEFSSNGMMESCKGKRPKEGYIDESSSSKRLKEEYEDDSGAAL-PPWLEARQAISKTSSSRLAQKQRK-----PRLTGESIS-LPKPVSCKSLDRMVAGPPYFFYGNVLNLSQDSWIKISQFLYAVEPEFVNTQFFSAFSRKEGYVHNLPNENRFHLIPRSPMTIEEVIPSTKKWWPPWDTRKQISCINTDLTGISQQCNRLESLLNDYGGLLSIDQQTDLLHRCKIYNLVWVGHNKLKPIEPEHIERILGYPVNHTQAAGFSMHDRLQALKHSFQIDTLGYHLSVLKTMFPEGLTLLSLYSGVGGAEITLDRLGIRLKGVVSVETCEIKRKILKQWWSNSGQVGDLVQIEDIQKLSSSKFEILKQRFGGFDLVICQTPSTYNPKCPTIEDHGN-ISGLDFSMFYEFVRILQRVKSMMGNSR 565
G +API++++DFI AAQIA N EK+ N+GD+E+N D +TETLFGT++ TLRLLEMGFSE +IS AID GS+ + ELADSIV+ Q +GK Y P S+ N S + + G+GT +D +KTE+ SP S+F + E KGKRPKE Y DESS KR K+EY DDS + L P WLEAR+ SK +S R+ QR+ RL G ++ L KP SC+SLDRMVA PPYFFYGNV NLS DSWIKISQFLYA+EPEFVNTQFFSA SRKEGYVHNLP ENRFH++P+ PMTIEE IP TKKWWP WDTRKQ++CI+++ +GIS C+RL L D GLLS++QQ DLLH+C+ NLVW G+ KL PIEPEH+ERILGYP++HT+AA FS+ +RL +LKH FQ DTL YHLSVLK++FP GLT+L++YSG+GGAEITL RLGI LK VVSVE C IKRKILKQWW NSGQ G+LVQIED+Q+L+SSK + L ++FGGFD +ICQ P TY+ + G+ I+G DFS+FYEFVR+LQRV+S M +R
Sbjct: 194 GGDAPINELVDFIFAAQIAGNCEKDTDDPNHGDEERNED-NTETLFGTMDMTLRLLEMGFSEHEISTAIDKYGSEVPISELADSIVADQSAGSRVGKDKYFPTSFSMNRSKAGNSCRSFGRGTEDGLNHHSFDAFRVKTEEYSPDDVSQFKDINLAEKYKGKRPKEEYADESSCLKRPKKEYPDDSSSFLGPTWLEARKRDSKFTSYRMPVPQRELHHKAGRLDGFGMANLSKPNSCRSLDRMVAKPPYFFYGNVTNLSHDSWIKISQFLYAIEPEFVNTQFFSALSRKEGYVHNLPTENRFHILPKPPMTIEEAIPYTKKWWPSWDTRKQLTCISSETSGISPLCDRLGRTLIDSKGLLSVEQQRDLLHQCRTLNLVWAGNYKLAPIEPEHLERILGYPLHHTRAAEFSLMERLLSLKHCFQTDTLAYHLSVLKSLFPGGLTVLAIYSGIGGAEITLHRLGIHLKAVVSVEPCGIKRKILKQWWQNSGQTGELVQIEDVQRLASSKLDGLIKKFGGFDFIICQNPYTYSSNHSKMAADGDSIAGFDFSLFYEFVRVLQRVRSTMERNR 761
BLAST of DCAR_002537 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B6YUN5 ((Putative DNA (Cytosine-5)-methyltransferase DRM2 isoform X2 {ECO:0000313|EMBL:MPA35561.1}))
HSP 1 Score: 661.759 bits (1706), Expect = 0.000e+0
Identity = 332/569 (58.35%), Postives = 427/569 (75.04%), Query Frame = 0
Match: A0A5B6YUN5 ((Putative DNA (Cytosine-5)-methyltransferase DRM2 isoform X2 {ECO:0000313|EMBL:MPA35561.1}))
HSP 1 Score: 661.759 bits (1706), Expect = 0.000e+0
Identity = 332/569 (58.35%), Postives = 427/569 (75.04%), Query Frame = 0
Query: 17 GENAPISDIIDFIAAAQIAENSEKNVQISNYGDDEKNADASTETLFGTLNNTLRLLEMGFSEKDISAAIDMCGSKASVEELADSIVSGQI-----GKYTYNP-SWKRN----ASSSRSL-YGM-NGQGTMRYDDLTIKTEDTSPVSHSEFSSNGMMESCKGKRPKEGYIDESSSSKRLKEEYEDDSGAAL-PPWLEARQAISKTSSSRLAQKQRK--PR---LTGESIS-LPKPVSCKSLDRMVAGPPYFFYGNVLNLSQDSWIKISQFLYAVEPEFVNTQFFSAFSRKEGYVHNLPNENRFHLIPRSPMTIEEVIPSTKKWWPPWDTRKQISCINTDLTGISQQCNRLESLLNDYGGLLSIDQQTDLLHRCKIYNLVWVGHNKLKPIEPEHIERILGYPVNHTQAAGFSMHDRLQALKHSFQIDTLGYHLSVLKTMFPEGLTLLSLYSGVGGAEITLDRLGIRLKGVVSVETCEIKRKILKQWWSNSGQVGDLVQIEDIQKLSSSKFEILKQRFGGFDLVICQTPSTYNPKCPTIEDHGN-ISGLDFSMFYEFVRILQRVKSMMGNSR 565
G++API++++DFI AAQIA N EKN + +GD+EKN D +T TLFGT+ TLRLLEMGFS+ +IS AI+ GS+ + E+ADSIV+ QI GK Y+ S+ N + RS GM +G +D T+KT++ SP S+F + E KGKRPKE Y+DE SS KR KEEY DDS + P WL+AR+ SK ++ ++ +R+ P+ L G ++ L KP SC+SLDRMVA PPYFFYGNV+NLS DSW+KISQFLYA+EPEF NTQFFSA SRKEGYVHNLP ENRFH++P+ PMTIEE +P TKKWWP WDTRKQ+SCI+++ +GISQ C+RL +L D GLLS++QQ DLLH+C+ NL+W+G+ KL PIEPEH+ERILGYP++H++AA FS+ +RLQ+LKH FQ DTLGYHLSVLK++FP GLT+LS+Y+G+GGAEITL RLGI LK VVSVE C K+KILKQWW NSGQ G+LVQIEDIQ+L+ ++ E L ++FGGFD +ICQ P TY+ + G+ I+G DFS+FYEFVR+LQRV+S + +R
Sbjct: 195 GKDAPINELVDFIFAAQIAGNCEKNTENLYHGDEEKNKD-NTGTLFGTMEKTLRLLEMGFSKHEISTAINKYGSEVPISEIADSIVADQITDSRVGKDKYSSTSFSMNHLKAGNGCRSFDRGMEDGLNHRSFDAFTVKTKEYSPDDFSQFKDINLAEKYKGKRPKEEYVDEPSSLKRPKEEYADDSSSFTGPTWLKARKGNSKFTTYQMPAPKRESHPKAGTLDGFGMAKLSKPKSCRSLDRMVAKPPYFFYGNVMNLSHDSWVKISQFLYAIEPEFANTQFFSALSRKEGYVHNLPTENRFHILPKPPMTIEEAVPYTKKWWPSWDTRKQLSCISSETSGISQLCDRLGKILIDSKGLLSVEQQRDLLHQCRTLNLIWIGNYKLAPIEPEHLERILGYPLHHSRAAEFSLTERLQSLKHCFQTDTLGYHLSVLKSLFPGGLTVLSIYTGIGGAEITLHRLGIHLKAVVSVEPCGTKQKILKQWWHNSGQTGELVQIEDIQRLARNQLESLIKKFGGFDFIICQNPYTYSSNHSKMAADGDSIAGFDFSLFYEFVRVLQRVRSTVERNR 762
BLAST of DCAR_002537 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5ADM0 (SAM-dependent MTase DRM-type domain-containing protein {ECO:0000259|PROSITE:PS51680})
HSP 1 Score: 655.596 bits (1690), Expect = 0.000e+0
Identity = 338/581 (58.18%), Postives = 421/581 (72.46%), Query Frame = 0
Match: A0A5J5ADM0 (SAM-dependent MTase DRM-type domain-containing protein {ECO:0000259|PROSITE:PS51680})
HSP 1 Score: 655.596 bits (1690), Expect = 0.000e+0
Identity = 338/581 (58.18%), Postives = 421/581 (72.46%), Query Frame = 0
Query: 17 GENAPISDIIDFIAAAQIAENSEKNVQISNYGDDEKNADASTETLFGTLNNTLRLLEMGFSEKDISAAIDMCGSKASVEELADSIVSGQ-----IGKYTYNP---SWKRNASSSRSL-YGM-NGQGTMRYDDLTIKTEDTSPVSHSEFSSNGMMESCKGKRPKEGYI--------------DESSSSKRLKEEYEDDSGAAL-PPWLEARQAISKTSSSRLAQKQR-----KPRLTGESIS-LPKPVSCKSLDRMVAGPPYFFYGNVLNLSQDSWIKISQFLYAVEPEFVNTQFFSAFSRKEGYVHNLPNENRFHLIPRSPMTIEEVIPSTKKWWPPWDTRKQISCINTDLTGISQQCNRLESLLNDYGGLLSIDQQTDLLHRCKIYNLVWVGHNKLKPIEPEHIERILGYPVNHTQAAGFSMHDRLQALKHSFQIDTLGYHLSVLKTMFPEGLTLLSLYSGVGGAEITLDRLGIRLKGVVSVETCEIKRKILKQWWSNSGQVGDLVQIEDIQKLSSSKFEILKQRFGGFDLVICQTPSTYNPKCPTIEDHG-NISGLDFSMFYEFVRILQRVKSMMGNSR 565
G +API++++DFI AAQIA +SEK++ N+G E+N D +TETLFGT++ TLRLLEMGFSE +IS AID G + + ELADSIV+ Q +GK Y + R +S RS GM +G +D L +KTE+ SP S+F + E +GKRPKE Y+ DESS KR K EY DDS + L P WLEAR+ SK + ++ QR RL G ++ L KP SC+SLDRMVA PPYFFYGNV+NLS D+WIKISQFLYA+EPE+VNTQFFSA SRKEGY+HNLP ENRFH++P+ PMTIEE IP TKKWWP WDTRKQ+SCI+++ +GISQ C+RL +L D G+LS++QQ DLLH+C+ NLVWVG++KL PIEPEH+E ILGYP++HTQ+ FS+ +RL +LKH FQ DTL YHLSVLK++ P GLT+LS+YSG+GGAEITL RLGI LK VVSVE C IKRKIL QWW NSGQ G+LVQIEDI +L+SSK + L ++FGGFD +ICQ P +Y+ K + G NI GLDFSMFYEFVR+LQRV+S M +R
Sbjct: 195 GGDAPINELVDFIFAAQIAGDSEKDIDDPNHGAAERNED-NTETLFGTMDKTLRLLEMGFSEHEISTAIDKYGLEVPISELADSIVADQSAGSHVGKVKYESFSMNRSRAGNSWRSFGRGMGDGLNHHYFDALRVKTEEYSPDDVSQFKDINLAEKYRGKRPKEEYVGGSSYLKRPKEEYVDESSCLKRPKVEYADDSSSFLGPTWLEARKRDSKFTGYQMPAPQRGLHHKAGRLDGFGMANLSKPNSCRSLDRMVAKPPYFFYGNVMNLSHDAWIKISQFLYAIEPEYVNTQFFSALSRKEGYIHNLPIENRFHILPKPPMTIEEAIPYTKKWWPSWDTRKQLSCISSETSGISQLCDRLGRILIDSKGMLSVEQQRDLLHQCRTLNLVWVGNHKLAPIEPEHLECILGYPLHHTQSTDFSLTERLLSLKHCFQTDTLAYHLSVLKSLVPGGLTVLSIYSGIGGAEITLHRLGIHLKAVVSVEPCGIKRKILMQWWQNSGQTGELVQIEDIHRLASSKLDGLIKKFGGFDFIICQNPYSYSSKHSKMAADGDNIVGLDFSMFYEFVRVLQRVRSTMERNR 774
BLAST of DCAR_002537 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J7HE21 (SAM-dependent MTase DRM-type domain-containing protein {ECO:0000259|PROSITE:PS51680})
HSP 1 Score: 633.639 bits (1633), Expect = 0.000e+0
Identity = 318/549 (57.92%), Postives = 406/549 (73.95%), Query Frame = 0
Match: A0A7J7HE21 (SAM-dependent MTase DRM-type domain-containing protein {ECO:0000259|PROSITE:PS51680})
HSP 1 Score: 633.639 bits (1633), Expect = 0.000e+0
Identity = 318/549 (57.92%), Postives = 406/549 (73.95%), Query Frame = 0
Query: 17 GENAPISDIIDFIAAAQIAENSEKNVQISNYGDDEKNADASTETLFGTLNNTLRLLEMGFSEKDISAAIDMCGSKASVEELADSIVSGQIGKYTYNP------SWKRNASSSRSLYGMNGQGTMRYDDLTIKTEDTSPVSHSEFSSNGMMESCKGKRPKEGYIDESSSSKRLKEEYEDDSGAAL-PPWLEARQAISKTSSSRLAQKQRKPRLTG-ESISLPKPVSCKSLDRMVAGPPYFFYGNVLNLSQDSWIKISQFLYAVEPEFVNTQFFSAFSRKEGYVHNLPNENRFHLIPRSPMTIEEVIPSTKKWWPPWDTRKQISCINTDLTGISQQCNRLESLLNDYGGLLSIDQQTDLLHRCKIYNLVWVGHNKLKPIEPEHIERILGYPVNHTQAAGFSMHDRLQALKHSFQIDTLGYHLSVLKTMFPEGLTLLSLYSGVGGAEITLDRLGIRLKGVVSVETCEIKRKILKQWWSNSGQVGDLVQIEDIQKLSSSKFEILKQRFGGFDLVICQTPSTYNPKCPTIE-DHGNISGLDFSMFYEFVRILQR 556
GE+APIS+++DFI AAQIAEN + N+G+ E+N +++TE+LFGT++ TLRLLE+GFSE ISAAI+ G++ + ELAD+I + ++G S+ RN S + + +G +D T+KTE+ + S+FS + E KGKRPKE YIDE SS KR K+EY DD L P E R+ + R ++ + RL G E + KP SCKS+D+MVA PPYFFYGNV+NLS DSW+KISQFLYA EPE+V+TQFFSA SRKEGY+HNLP NRFH++P+ P TI+EVIP K+WWP WDTRKQ+SCI+T+ TGISQ C+RL ++ GLLS++QQ D+LH+CK NLVWVG NKL PIEPE+IE+ILGYP+NHT+ A S+ +RLQ LKH FQ DTLGYHLSVLK++FP GL++LS+YSG GGAEITL RLGI LKGVVSVE E+K+KILK+WW ++GQ+G+LVQIE+IQKL+SSK E L Q+FGGFDL+ICQ P Y K PT+ D G + GLDFS+FYEFVR+LQR
Sbjct: 196 GEDAPISELVDFIFAAQIAENQVHDN--PNHGNGERNKESTTESLFGTMDKTLRLLELGFSENQISAAIEKYGTEVPITELADAICADEVGDTCSAANKRLLTSFNRNRSWTSGME--DGPSNHSFDPFTVKTEEFCLDAGSQFSDIDL-EKYKGKRPKEEYIDELSSLKRPKQEYNDDLSNYLGPTCAEPRKGVQMPVHRREVHRKAR-RLDGFEMLESSKPKSCKSVDKMVAKPPYFFYGNVMNLSHDSWMKISQFLYATEPEYVDTQFFSALSRKEGYIHNLPPGNRFHILPKPPTTIQEVIPHAKRWWPSWDTRKQLSCISTETTGISQLCDRLGKIVATSKGLLSVEQQRDILHQCKTSNLVWVGRNKLAPIEPEYIEKILGYPINHTRVAELSLQERLQLLKHCFQTDTLGYHLSVLKSLFPGGLSVLSIYSGFGGAEITLQRLGICLKGVVSVEPSEMKQKILKKWWQSAGQMGELVQIENIQKLTSSKVESLVQKFGGFDLIICQNPYNYYSKKPTMAVDSGGLGGLDFSLFYEFVRVLQR 738
BLAST of DCAR_002537 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2R6PJF7 ((Inactive DNA (Cytosine-5)-methyltransferase DRM3 {ECO:0000313|EMBL:PSR92471.1}))
HSP 1 Score: 632.484 bits (1630), Expect = 0.000e+0
Identity = 322/569 (56.59%), Postives = 416/569 (73.11%), Query Frame = 0
Match: A0A2R6PJF7 ((Inactive DNA (Cytosine-5)-methyltransferase DRM3 {ECO:0000313|EMBL:PSR92471.1}))
HSP 1 Score: 632.484 bits (1630), Expect = 0.000e+0
Identity = 322/569 (56.59%), Postives = 416/569 (73.11%), Query Frame = 0
Query: 17 GENAPISDIIDFIAAAQIAENSEKNVQISNYGDDEKNADASTETLFGTLNNTLRLLEMGFSEKDISAAIDMCGSKASVEELADSI----VSGQIGKYTYNP--SWKRNASSSRSLYGMNGQGTMRYDDLTIKTEDTSPVSHSEFS----SNGM---MESCKGKRPKEGYIDESSSSKRLKEEYEDDSGAAL-PPWLEARQAISKTSSSRLAQKQRK-----PRLTGESI-SLPKPVSCKSLDRMVAGPPYFFYGNVLNLSQDSWIKISQFLYAVEPEFVNTQFFSAFSRKEGYVHNLPNENRFHLIPRSPMTIEEVIPSTKKWWPPWDTRKQISCINTDLTGISQQCNRLESLLNDYGGLLSIDQQTDLLHRCKIYNLVWVGHNKLKPIEPEHIERILGYPVNHTQAAGFSMHDRLQALKHSFQIDTLGYHLSVLKTMFPEGLTLLSLYSGVGGAEITLDRLGIRLKGVVSVETCEIKRKILKQWWSNSGQVGDLVQIEDIQKLSSSKFEILKQRFGGFDLVICQTPSTYNPKCPTIEDHGNISGLDFSMFYEFVRILQRVKSMMGNSR 565
G +API++++DFI AAQIAEN E++ +N+G++++N + TE+LFGT++ TLRLLEMGFSE ISAAI+ GS+ +EELADSI V+G P S+ +N S++ Y +G DDL T D V EFS S+G +E KGKRP E YIDE SS KR K+EY++DS L P WLEAR+ SK++S R+ QR+ ++ G + L KP SCKS+D+MVA PPYFFYGNV NLSQ+ W K+SQFLYA+EPEF NTQFFSA SRKEGY+HNLP+ NR H++P+ PMTIEE IP TKKWWP WD+RKQ+SCIN++++G+ Q C+RL LL+D GLLS++Q+ DLLH+C+ NLVWVGH+KL P+EPEH+ERILGYP+ HT FS+ +RLQ+LKH FQ DTL YHLSVL+++FP GLT+LS+YSG+G AEI+L RLGI LKGVVSVE CE KRK+LK+WW N+ Q G+LVQIE I KL+S+K E L ++FGGFDL+ICQ P ++ K P ++ G+I DFS FYEFVR+LQRV++ SR
Sbjct: 180 GVDAPINELVDFILAAQIAENQEQDRGDTNHGNEQRNEEVCTESLFGTMDKTLRLLEMGFSENQISAAIEKYGSEVRIEELADSICVDEVAGTGNDKNKRPRTSFSKNNSNTVINYRSWTRGIK--DDLRNHTSDPFTVKTEEFSLGDVSHGRDVDLEKYKGKRPNEEYIDELSSFKRPKQEYDEDSSRFLGPTWLEARKGDSKSTSFRMPVPQRELGSKAGQMEGFGMPKLDKPKSCKSVDQMVAKPPYFFYGNVTNLSQECWRKLSQFLYAMEPEFANTQFFSALSRKEGYIHNLPSGNRSHILPKPPMTIEEAIPQTKKWWPSWDSRKQLSCINSEISGLLQICDRLGKLLSDSRGLLSVEQKRDLLHQCRTLNLVWVGHHKLAPMEPEHLERILGYPLRHTSPFDFSLKERLQSLKHCFQTDTLAYHLSVLRSLFPGGLTVLSVYSGIGDAEISLHRLGIHLKGVVSVEPCETKRKVLKRWWENTIQTGELVQIESIMKLASNKLESLIKKFGGFDLIICQNPYNHSSKIPAMDTDGDI---DFSSFYEFVRVLQRVRNAKERSR 743
BLAST of DCAR_002537 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J0GSU0 ((S-adenosyl-L-methionine-dependent methyltransferases superfamily protein {ECO:0000313|EMBL:GFZ13852.1}))
HSP 1 Score: 632.484 bits (1630), Expect = 0.000e+0
Identity = 322/569 (56.59%), Postives = 416/569 (73.11%), Query Frame = 0
Match: A0A7J0GSU0 ((S-adenosyl-L-methionine-dependent methyltransferases superfamily protein {ECO:0000313|EMBL:GFZ13852.1}))
HSP 1 Score: 632.484 bits (1630), Expect = 0.000e+0
Identity = 322/569 (56.59%), Postives = 416/569 (73.11%), Query Frame = 0
Query: 17 GENAPISDIIDFIAAAQIAENSEKNVQISNYGDDEKNADASTETLFGTLNNTLRLLEMGFSEKDISAAIDMCGSKASVEELADSI----VSGQIGKYTYNP--SWKRNASSSRSLYGMNGQGTMRYDDLTIKTEDTSPVSHSEFS----SNGM---MESCKGKRPKEGYIDESSSSKRLKEEYEDDSGAAL-PPWLEARQAISKTSSSRLAQKQRK-----PRLTGESI-SLPKPVSCKSLDRMVAGPPYFFYGNVLNLSQDSWIKISQFLYAVEPEFVNTQFFSAFSRKEGYVHNLPNENRFHLIPRSPMTIEEVIPSTKKWWPPWDTRKQISCINTDLTGISQQCNRLESLLNDYGGLLSIDQQTDLLHRCKIYNLVWVGHNKLKPIEPEHIERILGYPVNHTQAAGFSMHDRLQALKHSFQIDTLGYHLSVLKTMFPEGLTLLSLYSGVGGAEITLDRLGIRLKGVVSVETCEIKRKILKQWWSNSGQVGDLVQIEDIQKLSSSKFEILKQRFGGFDLVICQTPSTYNPKCPTIEDHGNISGLDFSMFYEFVRILQRVKSMMGNSR 565
G +API++++DFI AAQIAEN E++ +N+G++++N + TE+LFGT++ TLRLLEMGFSE ISAAI+ GS+ +EELADSI V+G P S+ +N S++ Y +G DDL T D V EFS S+G +E KGKRP E YIDE SS KR K+EY++DS L P WLEAR+ SK++S R+ QR+ ++ G + L KP SCKS+D+MVA PPYFFYGNV NLSQ+ W K+SQFLYA+EPEF NTQFFSA SRKEGY+HNLP+ NR H++P+ PMTIEE IP TKKWWP WD+RKQ+SCIN++++G+ Q C+RL LL+D GLLS++QQ DLLH+C+ NLVWVGH+KL P+EPEH+ERILGYP+ HT FS+ +RLQ+LKH FQ DTL YHLSVL+++FP GLT+LS+YSG+G AEI+L RLG+ LKGVVSVE CE KRK+LK+WW N+ Q G+LVQIE I KL+S+K E L ++FGGFDL+ICQ P ++ K P ++ G+I DFS FYEFVR+LQRV++ SR
Sbjct: 298 GVDAPINELVDFILAAQIAENQEQDRGDTNHGNEQRNEEVCTESLFGTMDKTLRLLEMGFSENQISAAIEKYGSEVRIEELADSICVDEVAGTRNDKNKRPWTSFSKNNSNTVINYRSWTRGIK--DDLRNHTSDPFTVKTEEFSLGDVSHGRDVDLEKYKGKRPNEEYIDELSSFKRPKQEYDEDSSRFLGPTWLEARKGDSKSTSFRMPVPQRELGSKAGQMEGFGMPKLDKPKSCKSVDQMVAKPPYFFYGNVTNLSQECWRKLSQFLYAMEPEFANTQFFSALSRKEGYIHNLPSGNRSHILPKPPMTIEEAIPQTKKWWPSWDSRKQLSCINSEISGLLQICDRLGKLLSDSRGLLSVEQQRDLLHQCRTLNLVWVGHHKLAPMEPEHLERILGYPLRHTSPFDFSLKERLQSLKHCFQTDTLAYHLSVLRSLFPGGLTVLSVYSGIGDAEISLHRLGMHLKGVVSVEPCETKRKVLKRWWENTIQTGELVQIESIMKLASNKLESLIKKFGGFDLIICQNPYNHSSKIPAMDTDGDI---DFSSFYEFVRVLQRVRNAKERSR 861
BLAST of DCAR_002537 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2R6PVT9 ((Inactive DNA (Cytosine-5)-methyltransferase DRM3 {ECO:0000313|EMBL:PSR97859.1}))
HSP 1 Score: 630.558 bits (1625), Expect = 0.000e+0
Identity = 320/569 (56.24%), Postives = 417/569 (73.29%), Query Frame = 0
Match: A0A2R6PVT9 ((Inactive DNA (Cytosine-5)-methyltransferase DRM3 {ECO:0000313|EMBL:PSR97859.1}))
HSP 1 Score: 630.558 bits (1625), Expect = 0.000e+0
Identity = 320/569 (56.24%), Postives = 417/569 (73.29%), Query Frame = 0
Query: 17 GENAPISDIIDFIAAAQIAENSEKNVQISNYGDDEKNADASTETLFGTLNNTLRLLEMGFSEKDISAAIDMCGSKASVEELADSI----VSGQIGKYTYNP--SWKRNASSSRSLYGMNGQGTMRYDDLTIKTEDTSPVSHSEFS----SNGM---MESCKGKRPKEGYIDESSSSKRLKEEYEDDSGAAL-PPWLEARQAISKTSSSRLAQKQRK-----PRLTGESI-SLPKPVSCKSLDRMVAGPPYFFYGNVLNLSQDSWIKISQFLYAVEPEFVNTQFFSAFSRKEGYVHNLPNENRFHLIPRSPMTIEEVIPSTKKWWPPWDTRKQISCINTDLTGISQQCNRLESLLNDYGGLLSIDQQTDLLHRCKIYNLVWVGHNKLKPIEPEHIERILGYPVNHTQAAGFSMHDRLQALKHSFQIDTLGYHLSVLKTMFPEGLTLLSLYSGVGGAEITLDRLGIRLKGVVSVETCEIKRKILKQWWSNSGQVGDLVQIEDIQKLSSSKFEILKQRFGGFDLVICQTPSTYNPKCPTIEDHGNISGLDFSMFYEFVRILQRVKSMMGNSR 565
GE+A +++++DFI AAQIAEN E++ + +N+G++ +N + TE+LFGT++ TLRLLEMGFSE IS+AI+ GS+ +EELADSI V+G P S+ +N S++ Y G DDL T D PV +FS S+G +E KGKRPKE YIDE SS KR K+EY++DS + L WLEAR+ SK++S R+ QR+ ++ G + L KP SCKS+D+MVA PPYFFY N NLSQ+ W K+SQFLYA+EPEFVNTQFFSA SRKEGY+HNLP+ NR H++P+ PMTIEE IP TKKWWP WD+RKQ+SCIN++++G+ Q C+RL LL+D GLLS++QQ DLLH+C+ NLVWVGH+KL P+EPEH+ERILGYP+ HT FS+ +RLQ+LKH FQ DTLGYHLSVL+++FP GLT+LS++SG+G AEI+L RLGI LKGVVSVE CE KRK+LK+WW N+ Q G+LVQIE I KL+S+K E L ++FGGFDL+ICQ P ++ K P ++ G+I DFS FYEFVR+LQRV++ SR
Sbjct: 180 GEDAAVNELVDFILAAQIAENQEQDRRDTNHGNEPRNQEVCTESLFGTMDKTLRLLEMGFSENQISSAIEKYGSEVPIEELADSICVDEVAGTSNDKNKRPWTSFSKNKSNTVINYRSWTGGIK--DDLRNCTSDPFPVKTEKFSLGDVSHGRDIDLEKYKGKRPKEEYIDELSSFKRPKQEYDEDSSSFLGSTWLEARKGDSKSTSIRIPGPQREFGSKAGQMEGFGMPKLDKPKSCKSVDQMVAKPPYFFYANATNLSQECWRKLSQFLYAMEPEFVNTQFFSALSRKEGYIHNLPSGNRSHILPKPPMTIEEAIPQTKKWWPSWDSRKQLSCINSEISGLLQICDRLGKLLSDSRGLLSVEQQRDLLHQCRTLNLVWVGHHKLAPMEPEHLERILGYPLRHTSPFDFSLKERLQSLKHCFQTDTLGYHLSVLRSLFPRGLTVLSIFSGIGDAEISLHRLGIHLKGVVSVEPCETKRKVLKRWWENTIQTGELVQIESIMKLASNKLESLIKKFGGFDLIICQNPYNHSSKIPAMDTDGDI---DFSSFYEFVRVLQRVRNAKERSR 743
BLAST of DCAR_002537 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A4S4D8Y8 (SAM-dependent MTase DRM-type domain-containing protein {ECO:0000259|PROSITE:PS51680})
HSP 1 Score: 626.32 bits (1614), Expect = 0.000e+0
Identity = 324/566 (57.24%), Postives = 413/566 (72.97%), Query Frame = 0
Match: A0A4S4D8Y8 (SAM-dependent MTase DRM-type domain-containing protein {ECO:0000259|PROSITE:PS51680})
HSP 1 Score: 626.32 bits (1614), Expect = 0.000e+0
Identity = 324/566 (57.24%), Postives = 413/566 (72.97%), Query Frame = 0
Query: 17 GENAPISDIIDFIAAAQIAENSEKNVQISNYGDDEKNADASTETLFGTLNNTLRLLEMGFSEKDISAAIDM-------------CGSKASVEELADSIVSGQIGKYTYNPSWKRNASS---SRS-LYGM-NGQGTMRYDDLTIKTEDTSPVSHSEFSSNGMMESCKGKRPKEGYIDESSSSKRLKEEYEDDSGAAL-PPWLEARQAISKTSSSRLAQKQRKPRLTG-ESISLPKPVSCKSLDRMVAGPPYFFYGNVLNLSQDSWIKISQFLYAVEPEFVNTQFFSAFSRKEGYVHNLPNENRFHLIPRSPMTIEEVIPSTKKWWPPWDTRKQISCINTDLTGISQQCNRLESLLNDYGGLLSIDQQTDLLHRCKIYNLVWVGHNKLKPIEPEHIERILGYPVNHTQAAGFSMHDRLQALKHSFQIDTLGYHLSVLKTMFPEGLTLLSLYSGVGGAEITLDRLGIRLKGVVSVETCEIKRKILKQWWSNSGQVGDLVQIEDIQKLSSSKFEILKQRFGGFDLVICQTPSTYNPKCPTIE-DHGNISGLDFSMFYEFVRILQRVKSMM 561
GE+APIS+++DFI AAQIAEN + N+G+ E+N +++TE+LFGT++ TLRLLE+GFSE ISAAI+ G++ + ELAD+I + ++G T + + KR +S +RS GM +G +D T+KTE+ + S+FS + E KGKRPKE YIDE SS KR K+EY DD L P E R+ + R ++ + RL G E KP SCKS+D+MVA PPYFFYGNV+NLS DSW+KISQFLYA EPE+V+TQFFSA SRKEGY+HNLP NRFH++P+ P TI+EVIP K+WWP WDTRKQ+SCI+T+ TGISQ C+ L ++ GLLS++QQ D+LH+CK NLVWVG NKL PIEPE+IE+ILGYP+NHT+ A S+ +RLQ LKH FQ DTLGYHLSVLK++FP GL++LS+YSG GGAEITL RLGI LKGVVSVE E+K+KILK+WW ++GQ+G+LVQIE+IQKL+SSK E L Q+FGGFDL+ICQ P Y+ K PT+ D G GLDFS+FYEFVR+LQRV+S M
Sbjct: 325 GEDAPISELVDFIFAAQIAENQVHDN--PNHGNGERNKESTTESLFGTMDKTLRLLELGFSENQISAAIEKYGGRDYISRNVYSVGTEVPITELADAICADEVGD-TCSAANKRLLTSFNRNRSWTSGMEDGPSNHSFDPFTVKTEEFCLDAGSQFSDIDL-EKYKGKRPKEEYIDELSSLKRPKQEYNDDLSNYLGPTCAEPRKGVQIPVHRREVHRKAR-RLDGFEMRESSKPKSCKSVDKMVAKPPYFFYGNVMNLSHDSWMKISQFLYATEPEYVDTQFFSALSRKEGYIHNLPPGNRFHILPKPPTTIQEVIPHAKRWWPSWDTRKQLSCISTETTGISQLCDHLGKIVATSKGLLSVEQQRDILHQCKTSNLVWVGRNKLAPIEPEYIEKILGYPINHTRVAELSLQERLQLLKHCFQTDTLGYHLSVLKSLFPGGLSVLSIYSGFGGAEITLHRLGIYLKGVVSVEPSEMKQKILKKWWQSAGQMGELVQIENIQKLTSSKVESLVQKFGGFDLIICQNPYNYSSKKPTMAVDSGGHGGLDFSLFYEFVRVLQRVRSAM 885
BLAST of DCAR_002537 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: F6HE15 (SAM-dependent MTase DRM-type domain-containing protein {ECO:0000259|PROSITE:PS51680})
HSP 1 Score: 620.542 bits (1599), Expect = 0.000e+0
Identity = 307/564 (54.43%), Postives = 400/564 (70.92%), Query Frame = 0
Match: F6HE15 (SAM-dependent MTase DRM-type domain-containing protein {ECO:0000259|PROSITE:PS51680})
HSP 1 Score: 620.542 bits (1599), Expect = 0.000e+0
Identity = 307/564 (54.43%), Postives = 400/564 (70.92%), Query Frame = 0
Query: 17 GENAPISDIIDFIAAAQIAENSEKNVQISNYGDDEKNADASTETLFGTLNNTLRLLEMGFSEKDISAAIDMCGSKASVEELADSIVSGQIGKYTYNPS--WKRNASSSRSLYGMNGQGT------MRYDDLTIKTEDTSPVSHSEFSSNGMMESCKGKRPKEGYIDESSSSKRLKEEYEDDSGAALPPWLEARQAISKTSSSRLAQKQRKPRLTGESI------SLPKPVSCKSLDRMVAGPPYFFYGNVLNLSQDSWIKISQFLYAVEPEFVNTQFFSAFSRKEGYVHNLPNENRFHLIPRSPMTIEEVIPSTKKWWPPWDTRKQISCINTDLTGISQQCNRLESLLNDYGGLLSIDQQTDLLHRCKIYNLVWVGHNKLKPIEPEHIERILGYPVNHTQAAGFSMHDRLQALKHSFQIDTLGYHLSVLKTMFPEGLTLLSLYSGVGGAEITLDRLGIRLKGVVSVETCEIKRKILKQWWSNSGQVGDLVQIEDIQKLSSSKFEILKQRFGGFDLVICQTPSTYNPK-CPTIEDHGNISGLDFSMFYEFVRILQRVKSMMGNSR 565
GE AP+++++DFI AAQIA +S+ + YG++E+ D + E LFGT++ TLRLLEMGFSE +IS+AI+ GS+ + ELADSI +GQI + + S ++ N S + + Y G+G +KTE+ SP + S+ + + + KGKRPK+ E +D S P WLE R+ K SS R+ +R + S+ KP+ CKSLD++VA PPYFFYGNV N+S DSW KISQFLYA+EPEFVNTQFFSA +RKEGY+HNLP+ENRFH++P+ PMTIEEVIP TKKWWP WDTRKQ+SCI+++ +GISQ C+RL +L D GLLS +QQ D+LH C+ NLVWVG KL PIEPEH+ERILGYP+NHT+ +S+ +RLQ+L+H FQIDTLGYHLSVLK+MFP+GLT+LSL+SG+GGAE+TL +LGI LKGVVSVE E KR ILK+WW N+GQ G+LVQI+DIQKL+SSK E L ++FGGFD VICQ P TY+ + + D +++G DFS+F EFVR+L RV+S M R
Sbjct: 162 GEGAPVNELVDFIIAAQIAGSSKMDADDPTYGNEERKEDCNNEALFGTMDKTLRLLEMGFSENEISSAIEKFGSEVPISELADSIFAGQIAEKDKHSSATFRLNHSHTGNDYRSFGKGMEDGLKRRSSGTFMVKTEEYSPEAVSQLRAVDIGDDHKGKRPKQ-------------ESLDDSSAYIGPTWLEGRKGDHKFSSCRMPLPRRDLNQVAGQLNKFGMSSISKPMPCKSLDQLVAKPPYFFYGNVTNVSHDSWNKISQFLYALEPEFVNTQFFSALNRKEGYIHNLPSENRFHILPKPPMTIEEVIPYTKKWWPSWDTRKQLSCISSETSGISQLCDRLGKILVDSRGLLSFEQQRDILHHCRTLNLVWVGQCKLSPIEPEHLERILGYPLNHTRVPEYSLIERLQSLRHCFQIDTLGYHLSVLKSMFPKGLTMLSLFSGIGGAELTLHQLGIHLKGVVSVEISETKRNILKKWWHNTGQTGELVQIDDIQKLASSKLESLIEKFGGFDFVICQNPCTYSSRNSKMVADGDSLTGFDFSLFCEFVRVLHRVRSTMERRR 712
BLAST of DCAR_002537 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2J6LCQ9 (SAM-dependent MTase DRM-type domain-containing protein {ECO:0000259|PROSITE:PS51680})
HSP 1 Score: 611.683 bits (1576), Expect = 0.000e+0
Identity = 309/562 (54.98%), Postives = 410/562 (72.95%), Query Frame = 0
Match: A0A2J6LCQ9 (SAM-dependent MTase DRM-type domain-containing protein {ECO:0000259|PROSITE:PS51680})
HSP 1 Score: 611.683 bits (1576), Expect = 0.000e+0
Identity = 309/562 (54.98%), Postives = 410/562 (72.95%), Query Frame = 0
Query: 17 GENAPISDIIDFIAAAQIAENSEKNVQISNYGDDEKNADASTETLFGTLNNTLRLLEMGFSEKDISAAIDMCGSKASVEELADSIVSGQIG----KYTYNP-------SWKR-NASSSRSLYGMNGQGTMRYDDLTIKTEDTSPVSHSEFSSNGMMESCKGKRPKEGYIDESSSS-KRLKEEYEDDSGAALPPWLEARQAISKTSSSRLAQKQ---RKPRLTGESI-SLPKPVSCKSLDRMVAGPPYFFYGNVLNLSQDSWIKISQFLYAVEPEFVNTQFFSAFSRKEGYVHNLPNENRFHLIPRSPMTIEEVIPSTKKWWPPWDTRKQISCINTDLTGISQQCNRLESLLNDYGGLLSIDQQTDLLHRCKIYNLVWVGHNKLKPIEPEHIERILGYPVNHTQAAGFSMHDRLQALKHSFQIDTLGYHLSVLKTMFPEGLTLLSLYSGVGGAEITLDRLGIRLKGVVSVETCEIKRKILKQWWSNSGQVGDLVQIEDIQKLSSSKFEILKQRFGGFDLVICQTPSTYNPKCPTI--EDHGNISGLDFSMFYEFVRILQRVKS 559
GE+AP+++++DFI AAQ+A N SN + KN +A+TETLFGT++ TLRLL++GFSE++IS+AI+ G++ S++ELA+SIV ++ K +P SW N S S+ N Y +L ++TE++S + S+ + S K+PKE IDE S ++ K E+ED + + P AR A SK SS++ Q+Q ++ R+ + L +P SC S+D+MVA P FFYGNV+NLS DSW+KISQFLYA+EPEFVNTQFFSA SRKEGY+HNLP ENRFH++P+ PMTIE+ IP TKK+WP WDTRKQ++CIN++ GI+Q C+RL+++L G+LS++QQ DLLH+CK NL+WVG N++ PIEPE +E+ILGYP HT+A G + +RLQ+LKHSFQID LGYHLSVLK+MFPEGLT+LS+YSGVGGAEI L+RLGIRLK VVS+E EIKRKILKQWW NS Q+G+LVQIE+IQKLSS+K E L ++FG FD +ICQ P TY PK T+ + + +GLDFS+FYEFVR+LQRV+S
Sbjct: 188 GEDAPVNELVDFIFAAQLA-----NADDSNKIHETKNEEATTETLFGTMDKTLRLLQIGFSEQEISSAIEKYGAEVSIQELAESIVCDRMEGPSIKNEEDPFLSFGDNSWMLGNRFKSSSMGAKNVLDANFYANLALRTEESSKAAASKIKETETINSFNSKQPKEESIDEQISLLQKPKPEFEDLNSYSTP----ARSA-SKPMSSKVLQRQLKYKQKRMAAVGVPKLIQPASCTSVDQMVAKAPLFFYGNVMNLSHDSWVKISQFLYAIEPEFVNTQFFSALSRKEGYLHNLPTENRFHILPKPPMTIEDAIPETKKYWPSWDTRKQLTCINSETIGITQLCDRLKNILVSSKGVLSVEQQKDLLHQCKTLNLMWVGRNRVAPIEPESVEKILGYPRYHTRADGLCLGERLQSLKHSFQIDALGYHLSVLKSMFPEGLTVLSIYSGVGGAEIALNRLGIRLKAVVSIEPSEIKRKILKQWWENSDQIGELVQIENIQKLSSTKLESLIKKFGVFDFIICQNPYTYAPKSVTMAAAESESFAGLDFSLFYEFVRVLQRVRS 739
| Match Name | Stats | Description |
|---|---|---|
| A0A5B6YUI6 | E-Value: 0.000e+0, PID: 60.28 | (Putative DNA (Cytosine-5)-methyltransferase DRM2 ... [more] |
| A0A5B6YUN5 | E-Value: 0.000e+0, PID: 58.35 | (Putative DNA (Cytosine-5)-methyltransferase DRM2 ... [more] |
| A0A5J5ADM0 | E-Value: 0.000e+0, PID: 58.18 | SAM-dependent MTase DRM-type domain-containing pro... [more] |
| A0A7J7HE21 | E-Value: 0.000e+0, PID: 57.92 | SAM-dependent MTase DRM-type domain-containing pro... [more] |
| A0A2R6PJF7 | E-Value: 0.000e+0, PID: 56.59 | (Inactive DNA (Cytosine-5)-methyltransferase DRM3 ... [more] |
| A0A7J0GSU0 | E-Value: 0.000e+0, PID: 56.59 | (S-adenosyl-L-methionine-dependent methyltransfera... [more] |
| A0A2R6PVT9 | E-Value: 0.000e+0, PID: 56.24 | (Inactive DNA (Cytosine-5)-methyltransferase DRM3 ... [more] |
| A0A4S4D8Y8 | E-Value: 0.000e+0, PID: 57.24 | SAM-dependent MTase DRM-type domain-containing pro... [more] |
| F6HE15 | E-Value: 0.000e+0, PID: 54.43 | SAM-dependent MTase DRM-type domain-containing pro... [more] |
| A0A2J6LCQ9 | E-Value: 0.000e+0, PID: 54.98 | SAM-dependent MTase DRM-type domain-containing pro... [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. |