Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa04g01838 ATGGATTTTCGCCACGCCCCCTCGGATCTTTCCTTCCGCTTAAGTTCTCATACCACATCTTCCATATCTAGAAGTTCAACTGGGGACAATTCCAGCTATTTGTGTTCCACGGGTTCCAATTCCTCGTACCCGTCGGATTTCCCTCAGCATAAGGATGAGAAATTCGATTTGGTGAAGGGGGTTGCGGATGATGATAGCGACGACGAGAAGTTTAGTCTTCTAGGGCAACCCTTGCGTGTGAAGAGACAGAGGGACGCTCATTCATTTCTTAATCAGGATTCTGCGAAACGGGCTGCAGTCACAGATGAATCGAGCCTTGACATGAGACGAGTTTTGGTAAAGGCATGGGGGAATCAGTCGCTTCGAATTGCTGACCCGGAAATTCATAATATTATGGTGAAGGAGAAGGAGAGACAATATAAGGGTATTGAATTAGTTGCTTCGGAAAATTTTGTTTGTAGGGCTGTGATGGAAGCCTTAGGCAGCCATTTAACGAATAAGTATTCTGAGGGAATGCCTGGCGCTAGATACTATACGGGTAATCAGTATATAGATGAGATTGAATTGCTCTGTTGTTCGAGAGCCTTGGCTGCTTTTGACCTCGATTCTGAGAAATGGGGTGTGAATGTCCAACCTTACTCTTGTACATCAGCAAATTTTGCTGTGTATACAGGTCTTTTGTCTCCGAAGGATCGAATTATGGGTTTAGATTCAGCATCCGGAGGGCATCTTAGTCATGGGTATTATTCTCCTGTTGGGAAAAAAATTTCAGCGACTTCTATTTTCTTTGAGAGTCTTCCTTATAGAGTGAACCCCCTAACTGGATATGTTGATTATGATAAGCTTGAAGAAAAGGCGCTCGATTATCGTCCGAAAATACTCATCTGTGGAGGAAGTTCGTATCCACGCGAGTGGGATTATGCTAGGTGTAGACAGATCGCGGACAAATGCGGGGCGGTTTTGATGTGTGATATGGCCCATATAAGCGGTTTGGTGGCAGCCAAGGAATGTGCTAGTCCGTTTGAATATTGTGATATAGTTACTTCAACAACACACAAAAGTCTTCGAGGGCCCAGAGGAGGAATCATATTTTTCAGGAGGGGTCTAAAATCAAGGAAGCAAGGCGTGCTTCTAACTCGTGGAGATGACACTGGTACTGCTACTTATGATTTTGAGGACAGGATAAACTTTTCTGTTTTCCCGTCGTTACAAGGGGGTCCCCATAATAATCATATTGCTGCCCTGGCCATAGCGTTAAAGCAAGTAGCTTCTCCCGAGTATAGAGTATATATTCGACAGGTGAAGAAAAATGCGCAGGCTTTAGCATCAGCTTTACTAAGAAGAAGTTGCAGATTGGTAACTAATGGTACTGACAATCATTTGGTGCTGTGGGATCTTACTCCTTTGGGACTAACAGCCAAGAATTATGAGATGATCTGTGAGGCATGTCATATTACAGTCAACAAGAGTGCCATTTATGGTGACAATGGAGCCATCTCCCCTAGAGGAGTAAGAATAGGCACTCCTGCAATGACGACTAGAGGCTGTCTAGAGGCTGATTTTGAGACGATAGCTGAGATTCTTCTTAAAGCAGCTCATATCACAAAAATAGTCGTTCGTAGAGGAAAGCTTGGAAAATTACATAAAGGTATCATGAAGAATCTACAAAACAACAAAGATATTGTGGAGCTTCGGAACCAGGTCGAGGCCTTTGCTGCTTCATTTGCAATGCCAGGATTTGATATATGA 1749 43.62 MDFRHAPSDLSFRLSSHTTSSISRSSTGDNSSYLCSTGSNSSYPSDFPQHKDEKFDLVKGVADDDSDDEKFSLLGQPLRVKRQRDAHSFLNQDSAKRAAVTDESSLDMRRVLVKAWGNQSLRIADPEIHNIMVKEKERQYKGIELVASENFVCRAVMEALGSHLTNKYSEGMPGARYYTGNQYIDEIELLCCSRALAAFDLDSEKWGVNVQPYSCTSANFAVYTGLLSPKDRIMGLDSASGGHLSHGYYSPVGKKISATSIFFESLPYRVNPLTGYVDYDKLEEKALDYRPKILICGGSSYPREWDYARCRQIADKCGAVLMCDMAHISGLVAAKECASPFEYCDIVTSTTHKSLRGPRGGIIFFRRGLKSRKQGVLLTRGDDTGTATYDFEDRINFSVFPSLQGGPHNNHIAALAIALKQVASPEYRVYIRQVKKNAQALASALLRRSCRLVTNGTDNHLVLWDLTPLGLTAKNYEMICEACHITVNKSAIYGDNGAISPRGVRIGTPAMTTRGCLEADFETIAEILLKAAHITKIVVRRGKLGKLHKGIMKNLQNNKDIVELRNQVEAFAASFAMPGFDI* 583
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 18015303 18019322 + CsaV3_4G028640.1 Csa04g01838 527448

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa04g01838 582 SUPERFAMILY PLP-dependent transferases 109 581 IPR015424 -
Csa04g01838 582 Pfam Serine hydroxymethyltransferase 123 527 IPR039429 -
Csa04g01838 582 ProSitePatterns Serine hydroxymethyltransferase pyridoxal-phosphate attachment site. 345 361 IPR019798 GO:0030170
Csa04g01838 582 MobiDBLite consensus disorder prediction 11 46 - -
Csa04g01838 582 CDD SHMT 125 571 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
Csa04g01838 582 MobiDBLite consensus disorder prediction 1 48 - -
Csa04g01838 582 PANTHER SERINE HYDROXYMETHYLTRANSFERASE 7 83 582 - -
Csa04g01838 582 PANTHER SERINE HYDROXYMETHYLTRANSFERASE 83 582 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
Csa04g01838 582 Hamap Serine hydroxymethyltransferase [glyA]. 120 579 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
Csa04g01838 582 Gene3D - 150 432 IPR015421 GO:0003824
Csa04g01838 582 Gene3D Aspartate Aminotransferase, domain 1 125 578 IPR015422 GO:0003824
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa04g01838 K00600 glyA, SHMT; glycine hydroxymethyltransferase [EC:2.1.2.1] - csv:101215287 1141.33
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa02g00955 Csa-Chr2:9005035 Csa04g01838 Csa-Chr4:18015303 0 dispersed
Csa03g01918 Csa-Chr3:14928545 Csa04g01838 Csa-Chr4:18015303 0 dispersed
Csa04g01838 Csa-Chr4:18015303 Csa06g03093 Csa-Chr6:26507606 2.68E-166 dispersed
Csa04g01838 Csa-Chr4:18015303 Csa02g02227 Csa-Chr2:19996377 1.49E-171 transposed
       

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
Vvi18g340 . Blo12g00691 . Bda03g00512 Bpe02g00085 Bpe04g00468 . Bma01g02633 . . Cma01g01411 . . . . . . . . . . . . . . . . . . . . Cone4ag1365 Cone7ag1566 . . Lsi04g02356 Csa04g01838 . . . . Bda11g00752 Bda13g01409 . . . . Sed12g1436 Cmo01g01461 . . . . . . Cpe02g00532 Bhi09g02629 Tan01g3975 Cmetu07g0508 . Hepe01g2251 Mch11g0798 . Cla11g01508 Cam11g1567 Cec11g1596 Cco11g1594 Clacu11g1723 Cmu11g1543 Cre11g1958 . . Chy07g00694 Cme07g00907
       

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
OG0000166 7 6 6 5 4 5 6 5 6 7 6 6 9 6 5 10 6 8 7 6 5 5 6 5 5 6 5 19 9 4 195
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa04g01838 Csa_Chr04 FPKM 24.543331 28.059891 46.105774 42.517784 23.095118 19.753351 24.770395 27.039387 30.57958 28.230316