Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma12g00264 ATGGCCGATTCTACGGCACGATGTTATACAAACTCCTCGTACTCGAAATCGAAACCCTACTATCTGGTCTGCTGCTTCTCTCTTCCCGCCCGCGTTTTTTCTCCGTCTCAGAAGCTCATTCCGATCATGGAGAATTCTTCTCTCGATCAAGAGACCACGAAGAAAGTGCTTCGTCAGGTCGAGTTCTATTTCAGCGACAGTAATCTTCCCAGAGATGGTTTTCTTAAGAAAACTATTAGCGCAAGCACCGATGGAATGGTGGATTTGTCTTTAGTTTGTTCGTTTTCTCGGATGAAAGGCCATCTTCATTTGGCTCAGGACGTGAAACCGGACGCGATTCCAGAAGATACTCTAAAAGCTGTTGCTGAAACTCTGAAAAGCTCTTCAACTATCAAAGTTTCTGAAGATGGGAAGAAGATTGGTAGAATTGCTGAACTCTCAAAGCCTGAGGAGATGATAGAGCAATTGGATGATAGAACCATTGCTGCATCGCCGTTTCAATATGATGTCAAGCTCGAAGATGTAGAAGCTTTTTTTGGTCAAATCGCGAAGGTCAACAGTGTGAGGTTGCCCCGCCATGTTTCAGATAAACGTGTATTCTGTGGAACTGCCTTGGTAGAGTTTTCTGCTGAAGAAGATGCAGAAAAAGTATTGGCGGAAAGCTTGCTTTATGCTGGTGCCAAGTTAGAATTAAAACCAAAGAGGGATTTTGATGAGGAGAGATCAAAAGAGACGGAGAAGTTTGAAAGTTCACGCTCGAATGCGAGTTCAAACTGGAAGAACAATAATTCCTCGGAATCAAACTACCCGAAAGGCTTAATTGTCGCCTTTACACTGAAAAAGATGACAGCCGGAAGTTCTGCTGAGGAAAATGGATCTCATGATGTAACCACTGATAAGACTGAATGCAAAACAGACGAAGGATTAGATTCTTCAAAGAATGACTCTGAGATAACTGATCAAACAGGGGGAGAAAACGTGGGTAAAAATGAAGAAATCCAGAAGAGTTCTGATGATAAGATCGAAGAAGCTGATAAGAAAAATGATTCGGGCAATGAAGAAAAACCTGAAGTGGAAGATCAGTCTATGGATGATCCCACCGACGAACGTGAAGAGGCTGAAGAAAAACCCACATTTGCCTCATCTAGAAACGACAAGAACGTTGTTTCACGCGAGGATTTGAAGGCTATTTTTCAGAAGTTCGGAAGTATCAAGAACCAGTTTCAGGTGAGGCTGAGAAGGAGTATTGGAGAGCGCTCCGCAGCAGCCAAGAAAAGCATCATCGTGATTATAAGGGCAACCGTGGAAGGGGTGGTAAATTCAATAGAGGTGGCAAGCATGGTCGGTCGAGAGGATACGACAACAACCGAGGTCGTCCGAACAAAGCTCAGAAAGTTTGAGCTGCCTGTGCCTGCCTGCATGCCTGCTGTGTCTTATGGCCAGCTCTGTTACAATTTTGGAGGAAAGACTCTTGGCGATGGATCTCTCTACCTCTACTGGTCTTTTTATTTATCAGCTTCGTGTTTATTCTCCCTTGGATCTGCTCGTGCTCCAGGAATCGCGTCTGACGAGTTCCATCGTATATGTTCCGTTTCTGCCGTCCATCGGATTTTCGAATGA 1620 44.32 MADSTARCYTNSSYSKSKPYYLVCCFSLPARVFSPSQKLIPIMENSSLDQETTKKVLRQVEFYFSDSNLPRDGFLKKTISASTDGMVDLSLVCSFSRMKGHLHLAQDVKPDAIPEDTLKAVAETLKSSSTIKVSEDGKKIGRIAELSKPEEMIEQLDDRTIAASPFQYDVKLEDVEAFFGQIAKVNSVRLPRHVSDKRVFCGTALVEFSAEEDAEKVLAESLLYAGAKLELKPKRDFDEERSKETEKFESSRSNASSNWKNNNSSESNYPKGLIVAFTLKKMTAGSSAEENGSHDVTTDKTECKTDEGLDSSKNDSEITDQTGGENVGKNEEIQKSSDDKIEEADKKNDSGNEEKPEVEDQSMDDPTDEREEAEEKPTFASSRNDKNVVSREDLKAIFQKFGSIKNQFQVRLRRSIGERSAAAKKSIIVIIRATVEGVVNSIEVASMVGREDTTTTEVVRTKLRKFELPVPACMPAVSYGQLCYNFGGKTLGDGSLYLYWSFYLSASCLFSLGSARAPGIASDEFHRICSVSAVHRIFE 539
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
12 1349049 1354226 - CmaCh12G002640.1 Cma12g00264 304754

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma12g00264 539 PANTHER LUPUS LA PROTEIN-RELATED 45 406 IPR045180 -
Cma12g00264 539 MobiDBLite consensus disorder prediction 315 330 - -
Cma12g00264 539 SMART rrm1_1 160 232 IPR000504 GO:0003723
Cma12g00264 539 MobiDBLite consensus disorder prediction 293 314 - -
Cma12g00264 539 CDD LA_like_plant 52 142 - -
Cma12g00264 539 SUPERFAMILY RNA-binding domain, RBD 150 236 IPR035979 GO:0003676
Cma12g00264 539 SUPERFAMILY Winged helix DNA-binding domain 50 143 IPR036390 -
Cma12g00264 539 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 167 219 IPR000504 GO:0003723
Cma12g00264 539 MobiDBLite consensus disorder prediction 286 385 - -
Cma12g00264 539 MobiDBLite consensus disorder prediction 251 267 - -
Cma12g00264 539 CDD RRM1_La 160 232 - -
Cma12g00264 539 Gene3D - 152 249 IPR012677 -
Cma12g00264 539 Coils Coil 341 361 - -
Cma12g00264 539 ProSiteProfiles La-type HTH domain profile. 46 150 IPR006630 -
Cma12g00264 539 SMART la 50 143 IPR006630 -
Cma12g00264 539 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 159 244 IPR000504 GO:0003723
Cma12g00264 539 MobiDBLite consensus disorder prediction 236 250 - -
Cma12g00264 539 MobiDBLite consensus disorder prediction 331 357 - -
Cma12g00264 539 Gene3D - 44 147 IPR036388 -
Cma12g00264 539 PRINTS Lupus La protein signature 85 100 IPR002344 GO:0003723|GO:0005634|GO:0006396|GO:1990904
Cma12g00264 539 PRINTS Lupus La protein signature 59 76 IPR002344 GO:0003723|GO:0005634|GO:0006396|GO:1990904
Cma12g00264 539 PRINTS Lupus La protein signature 200 218 IPR002344 GO:0003723|GO:0005634|GO:0006396|GO:1990904
Cma12g00264 539 MobiDBLite consensus disorder prediction 236 267 - -
Cma12g00264 539 Pfam La domain 56 126 IPR006630 -
Cma12g00264 539 PANTHER OS02G0610400 PROTEIN 45 406 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma12g00264 K11090 LA, SSB; lupus La protein - csv:101204162 525.398
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cma05g00604 Cma12g00264 CCT
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma12g00264 Cma-Chr12:1349049 Cma19g00436 Cma-Chr19:5318883 8.18E-14 dispersed
Cma12g00264 Cma-Chr12:1349049 Cma05g00604 Cma-Chr5:3019292 0 wgd
       

Deco-Alignment

Select Vvi1 Blo1 Blo2 Bda1 Bda2 Bpe1 Bpe2 Bma1 Bma2 Cmo1 Cmo2 Cma1 Cma2 Car1 Car2 Sed1 Cpe1 Cpe2 Bhi1 Tan1 Cmetu1 Lac1 Hepe1 Mch1 Lcy1 Cla1 Cam1 Cec1 Cco1 Clacu1 Cmu1 Cre1 Cone1 Cone2 Cone3 Cone4 Lsi1 Csa1 Chy1 Cme1 Blo3 Blo4 Bda3 Bda4 Bpe3 Bpe4 Bma3 Bma4 Sed2 Cmo3 Cmo4 Cma3 Cma4 Car3 Car4 Cpe3 Cpe4 Bhi2 Tan2 Cmetu2 Lac2 Hepe2 Mch2 Lcy2 Cla2 Cam2 Cec2 Cco2 Clacu2 Cmu2 Cre2 Lsi2 Csa2 Chy2 Cme2
Vvi4g328 . . . . . . . . Cmo05g00630 Cmo12g00218 . Cma05g00604 . Car12g00248 Sed01g1286 Cpe07g00227 . Bhi04g00824 Tan02g2579 Cmetu03g0669 . Hepe10g0345 . Lcy13g1390 . . . . . . . . . . . . . . Cme03g01728 . . . Bda13g01316 Bpe14g00532 . . Bma02g00072 . . . . Cma12g00264 . Car05g00546 Cpe11g00527 . . . . . . . . Cla08g01236 Cam08g1693 Cec08g1272 Cco08g1393 Clacu08g1390 . Cre08g1175 Lsi08g01099 . Chy03g01232 .
       

Syn-Orthogroups

Select Orthogroup Bda Bhi Blo Bma Bpe Cam Car Cco Cec Chy Cla Clacu Cma Cme Cmetu Cmo Cmu Cone Cpe Cre Csa HCH Hepe Lac Lcy Lsi Mch Sed Tan Vvi Total
OG0009894 1 1 0 1 1 1 2 1 0 1 1 0 2 1 1 2 1 3 2 0 1 1 1 0 1 1 1 3 1 1 33
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma12g00264 Cma_Chr12 FPKM 25.384365 27.454617 33.598488 31.821968 41.483967 33.711533 40.488178 59.586987 60.679836 62.480488