Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma05g00604 ATGGAGAATTCTTCTCTCGATCAAGAGACCGCGAAGAAAGTTCTTCGTCAGGTCGAGTTCTATTTCAGTGACAGTAATCTTCCTAGAGATGGTTTTCTTAAGAAAACTATTAGCGGAATCCCCGATGGAATGGTCGATTTGTCTTTAATTTGTACGTTTTCTCGGATGAAAGGACATCTTAAATTGAAGCAGGACGTGAAACCAGAGGAGATTCCAGAAGATACTCTTAAGGCCGTCGCTGAAACTCTAAGAAGCTCTTCAACTATCAAAGTTTCTGAAGATGGGAAGAAGATTGGTAGAACTACTGAACTCCCAAAGCCTGAAGAGTTAATAGAACAATTGGATGATAAAACCATAGCTGCATCACCGTTTGAATATGATGTCAAGCTTGAAGATGTAGAAGCTTTCTTTAATCAAATTGCAAAGGTCAACAGTGTGAGGCTGCCGCGCCATGTTGCAGATAAACGGGTTTTCTGTGGAACTGCCTTGGTAGAATTTTCTAACGAGGAAGATGCAGAAAAAGTTTTGAAGGAGAGCTTGCTATATGCCGGTGCCAAGTTAGAATTGAAGCCAAAGAGGGATTTTGATAAGGAGAGAGCAAAAGAGACAGAGGAGTTCGAAAGTTCACGCGCAAACTCGAGTGCAAACCGCAAGAATAATAATCCCCCAGAATCAAACTATCCTAAAGGCTTAATTGTTGCCTTTACATTGAAAAGTGTGTCATCTGGAAGTTCTGCTGAGGAAAATGGATCTCATTGTGTAGCCGCTGATAAGACCGAATGCAAAACAGACGAAAGATTAGATTCCTCAAAGAATGACTCTGAGAAAACGAAGCAAATATGGGAAGAAGCAAATATGAGTAAAGATGAAGAGATTAAGAGTGCTGATGATAACAATGGAGAGGCTGATAAGAAAAATGACTTAGGCAATGAAGAAAAACCCGAAGTGGAAGAGCGGACTACGAATGATACCGTCGATGAACATGAAGAGGATGAAGAAAAACCCACAGCTGCTAAATTCAAAAACAACATGAATGTGGTTTCGCGTGAGGATTTGAAGGTTATTTTTCAGAAGTTTGGAAGCGTCAAGTTCATCGATTTTAAGATTGGAGACGAGTCGGGCTATATCAGATTTGAAGAGCCTGAAGCTGCCCAGAAAGCTCGTGCGGCTGCAGTACTTGCCGAACAAGGGGGGCTGGCTGTGAAGAGTTTTATAGCCACTTTAGAGCCAGTATCAGGTGAGGCTGAGAAGGAGTATTGGAGGCTACTCCGCAGCAATCAAGAAAAGCATCATCGCGACTTTAAGGGCAACCGTGGAAGGGGTGGTAAATTCAATAGAGGAGGTGGCAAGCATGCTCGGTCGAGAGGGCACGGCAACGACCAAGGTCGCCCGAATAAAGCACAGAAGGTGTGA 1413 43.03 MENSSLDQETAKKVLRQVEFYFSDSNLPRDGFLKKTISGIPDGMVDLSLICTFSRMKGHLKLKQDVKPEEIPEDTLKAVAETLRSSSTIKVSEDGKKIGRTTELPKPEELIEQLDDKTIAASPFEYDVKLEDVEAFFNQIAKVNSVRLPRHVADKRVFCGTALVEFSNEEDAEKVLKESLLYAGAKLELKPKRDFDKERAKETEEFESSRANSSANRKNNNPPESNYPKGLIVAFTLKSVSSGSSAEENGSHCVAADKTECKTDERLDSSKNDSEKTKQIWEEANMSKDEEIKSADDNNGEADKKNDLGNEEKPEVEERTTNDTVDEHEEDEEKPTAAKFKNNMNVVSREDLKVIFQKFGSVKFIDFKIGDESGYIRFEEPEAAQKARAAAVLAEQGGLAVKSFIATLEPVSGEAEKEYWRLLRSNQEKHHRDFKGNRGRGGKFNRGGGKHARSRGHGNDQGRPNKAQKV 470
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 3019292 3023473 - CmaCh05G006040.1 Cma05g00604 294722

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma05g00604 470 PANTHER LUPUS LA PROTEIN-RELATED 4 470 IPR045180 -
Cma05g00604 470 SUPERFAMILY Winged helix DNA-binding domain 8 107 IPR036390 -
Cma05g00604 470 MobiDBLite consensus disorder prediction 195 227 - -
Cma05g00604 470 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 125 177 IPR000504 GO:0003723
Cma05g00604 470 Pfam RNA binding motif 345 436 IPR014886 GO:0003723
Cma05g00604 470 PANTHER OS02G0610400 PROTEIN 4 470 - -
Cma05g00604 470 CDD RRM1_La 118 190 - -
Cma05g00604 470 Gene3D - 319 438 IPR012677 -
Cma05g00604 470 SMART rrm1_1 118 190 IPR000504 GO:0003723
Cma05g00604 470 SMART rrm1_1 337 402 IPR000504 GO:0003723
Cma05g00604 470 Gene3D - 110 207 IPR012677 -
Cma05g00604 470 ProSiteProfiles La-type HTH domain profile. 4 108 IPR006630 -
Cma05g00604 470 MobiDBLite consensus disorder prediction 264 323 - -
Cma05g00604 470 MobiDBLite consensus disorder prediction 426 440 - -
Cma05g00604 470 ProSiteProfiles xRRM domain profile. 331 457 IPR014886 GO:0003723
Cma05g00604 470 MobiDBLite consensus disorder prediction 426 470 - -
Cma05g00604 470 MobiDBLite consensus disorder prediction 209 226 - -
Cma05g00604 470 PRINTS Lupus La protein signature 17 34 IPR002344 GO:0003723|GO:0005634|GO:0006396|GO:1990904
Cma05g00604 470 PRINTS Lupus La protein signature 43 58 IPR002344 GO:0003723|GO:0005634|GO:0006396|GO:1990904
Cma05g00604 470 PRINTS Lupus La protein signature 158 176 IPR002344 GO:0003723|GO:0005634|GO:0006396|GO:1990904
Cma05g00604 470 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 117 202 IPR000504 GO:0003723
Cma05g00604 470 SUPERFAMILY RNA-binding domain, RBD 118 389 IPR035979 GO:0003676
Cma05g00604 470 Pfam La domain 14 84 IPR006630 -
Cma05g00604 470 CDD LA_like_plant 10 100 - -
Cma05g00604 470 Gene3D - 2 105 IPR036388 -
Cma05g00604 470 MobiDBLite consensus disorder prediction 264 339 - -
Cma05g00604 470 SMART la 8 101 IPR006630 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma05g00604 K11090 LA, SSB; lupus La protein - csv:101204162 716.842
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cma05g00604 Cma12g00264 CCT
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma03g01393 Cma-Chr3:8793120 Cma05g00604 Cma-Chr5:3019292 1.32E-13 dispersed
Cma05g00604 Cma-Chr5:3019292 Cma07g00113 Cma-Chr7:611285 3.23E-13 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
Cma05g00604 Cma_Chr05 FPKM 12.383534 15.007856 19.577431 18.509228 21.129459 16.798569 20.835817 30.449905 30.096916 31.970457