Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g02356 ATGGATTTTCGCCATGCCCATTCGGATCTTTCTTTCCGGTTAAGTTCTCATACCACATCTTCAATATCTAGAAGTTCGACTGGGGACAATTCGAGCTATTTGTGCTCGACGGGTTCGAATTCATCGTACCCATCGGAATTCCGTCAGCAAAAGGACGAGAAATTCGATTTGGTGAAGGGGGTTGCGGATGATGATAGCGAGGACGAGAAGTTTAGCCTTCTAGGGAAACCCTTCCGTGTGAAGAGGGAGAGAGACGCTAATTCGTTTCTCAATCAGGTTGCTGCGAAACGGGTCGCGGTCGCGGATGAAGCGAGCCTTGAGACAAGACGAGTTTCGGTTAGGGCATGGGGTAATCAGCCAATTCGCATTGCTGACCCAGAGATTCATAATATTATGGCGAAGGAGAGGCAGAGACAATACAAGGGTATTGAATTAGTTGCTTCGGAAAATTTTGTGTGCAGGGCTGTGATGGAAGCCCTAGGCAGCCATTTGACAAATAAGTATTCCGAGGGAATGCCTGGCGCTAGATACTATACGGGTAATCAGTACATAGATGAGATTGAATTGCTTTGTTGTGCGAGAGCGTTGGCCGCTTTTGATCTCGATCTTGAGAAATGGGGTGTGAATGTCCAACCTTACTCGTGCACATCAGCAAATTTTGCCGTGTATACAGGTCTTTTGCTCCCTAAGGATCGAATTATGGGTTTGGATTCAGCATCCGGAGGACATCTTAGTCATGGGTATTATTCTCCGGTTGGGAAAAAGATTTCAGCGACTTCTATATTCTTTGAGAGTCTACCTTATAGAGTGAACCCCCTAACTGGGTATGTTGACTATGATAAGCTTGAGGAAAAGGCACTCGATTATCGTCCGAAAATACTCATATGTGGAGGAAGTTCATATCCACGTGAGTGGGACTATGCCAGGTGTAGACAGATCGCGAACAAATGCGGAGCAATTTTGATGTGTGACATGGCCCATATAAGCGGTCTCGTGGCAGCCAAGGAATGTGTTAGTCCGTTTGAATATTGTGATATAGTTACTTCAACAACACACAAAAGTCTCCGAGGGCCCAGAGGAGGCATTATATTTTTCAGGAGGGGTCTAAAATCGAGGAAGCAAGGCGTGCTAACTCATGGAGATGACACTAGCACTTATGATTTTGAGGACAGGATAAACTTTTCTGTTTTCCCGTCGTTACAAGGGGGTCCTCATAATAATCATATTGCTGCCCTGGCCATAGCATTAAAGCAAGTAGCTTCTCCCGAGTACAGAGTATATATTCAACAGGTGAAGAAAAATGCTCAGGCTTTAGCATCAGCTTTATTGAGAAGAAAATGCAAATTGGTAACTAATGGTACTGACAATCATTTGGTGCTGTGGGATCTTACTCCTTTGGGACTAACAGCCAAGGATTATGAGATGATCTGTGAGGCATGTCATATTACAGTCAACAAGTGTGCCATCTATGGTGACAATGGAGCCATTTCCCCTGGAGGAGTGAGGATAGGCACTCCTGCAATGACTACCAGAGGTTGTCTAGAGGCTGATTTTGAGACGATAGTTGATATTCTTCTTAAGGCAACTCAAATCACAAAAATAGTCATTCGTAGAGGAAAGTTTGGAAAATTACATAAAGATATCATGATGAATCTACAAAACAACAAAGATATCGTGGAGCTTCGGAATCGAGTTGAGGCCTTTGCTGCTTCATTTGCAATGCCAGGATTTGATATATGA 1740 44.02 MDFRHAHSDLSFRLSSHTTSSISRSSTGDNSSYLCSTGSNSSYPSEFRQQKDEKFDLVKGVADDDSEDEKFSLLGKPFRVKRERDANSFLNQVAAKRVAVADEASLETRRVSVRAWGNQPIRIADPEIHNIMAKERQRQYKGIELVASENFVCRAVMEALGSHLTNKYSEGMPGARYYTGNQYIDEIELLCCARALAAFDLDLEKWGVNVQPYSCTSANFAVYTGLLLPKDRIMGLDSASGGHLSHGYYSPVGKKISATSIFFESLPYRVNPLTGYVDYDKLEEKALDYRPKILICGGSSYPREWDYARCRQIANKCGAILMCDMAHISGLVAAKECVSPFEYCDIVTSTTHKSLRGPRGGIIFFRRGLKSRKQGVLTHGDDTSTYDFEDRINFSVFPSLQGGPHNNHIAALAIALKQVASPEYRVYIQQVKKNAQALASALLRRKCKLVTNGTDNHLVLWDLTPLGLTAKDYEMICEACHITVNKCAIYGDNGAISPGGVRIGTPAMTTRGCLEADFETIVDILLKATQITKIVIRRGKFGKLHKDIMMNLQNNKDIVELRNRVEAFAASFAMPGFDI 579
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 30756174 30759860 - Lsi04G023560.1 Lsi04g02356 662405

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g02356 579 Pfam Serine hydroxymethyltransferase 124 524 IPR039429 -
Lsi04g02356 579 ProSitePatterns Serine hydroxymethyltransferase pyridoxal-phosphate attachment site. 345 361 IPR019798 GO:0030170
Lsi04g02356 579 MobiDBLite consensus disorder prediction 19 48 - -
Lsi04g02356 579 PANTHER SERINE HYDROXYMETHYLTRANSFERASE 7 82 579 - -
Lsi04g02356 579 SUPERFAMILY PLP-dependent transferases 110 578 IPR015424 -
Lsi04g02356 579 Hamap Serine hydroxymethyltransferase [glyA]. 120 576 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
Lsi04g02356 579 Gene3D - 150 429 IPR015421 GO:0003824
Lsi04g02356 579 MobiDBLite consensus disorder prediction 19 46 - -
Lsi04g02356 579 CDD SHMT 125 568 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
Lsi04g02356 579 Gene3D Aspartate Aminotransferase, domain 1 125 575 IPR015422 GO:0003824
Lsi04g02356 579 PANTHER SERINE HYDROXYMETHYLTRANSFERASE 82 579 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g02356 K00600 glyA, SHMT; glycine hydroxymethyltransferase [EC:2.1.2.1] - csv:101215287 1052.35
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g02356 Lsi-Chr4:30756174 Lsi09g01128 Lsi-Chr9:18119525 0 dispersed
Lsi04g02356 Lsi-Chr4:30756174 Lsi01g00827 Lsi-Chr1:6561961 1.17E-165 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
Lsi04g02356 Lsi_Chr04 FPKM 23.326872 22.652685 19.110636 21.257786 8.699095 11.807893 11.148507 25.646599 25.123882 24.424091