Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi08g01041 ATGGAGTCTCTGAGCCAGTCGTCGTCTTTCTCGTGGGAAAGAGACGCTGGACTGCCAAGGCAAGTCACTGAAGCAAAGCCAGCCAAATGGAAAATAGGAGAAAATGGAAGCCACCAACAGAGCCTTTGGGCATCCGTCACCAACCTACTAACCCCACTGCGCACTGCTGACAACGGAAGAGCACCAAATCAAAACCCCGCAGAACCTTTCACGCATTTCCATATCGGAGAACCCACCATCACCGACGGTAATCAATGGCTATGGCTCTCCGAAGAATCGCCGTCGGCGAAGCCCATTCTTCCTCTCGTCAATGCCCGCTTCCTCCATCACATGTCTTCTCTGTCCGGTGCAGCTGCGGAGGAAAGCGAAAAGGCTCGAGCTACTTGGACTAAGCAGCTGAACGCACCTCTCGAGGTCATTGATCCGGAAATTGCAGATATCATTGAGCTTGAGAAAGCTCGCCAATGGAAGGGTCTTGAACTTATACCTTCTGAGAATTTCACTTCATCATCAGTGATGGAAGCAGTTGGTTCAGTTATGACCAACAAATATAGTGAAGGATATCCAGGTGCCAGATACTATGGAGGAAATGAGTACATTGACATGGCTGAATCCTTGTGCCAGAAACGTGCATTAGAAGCTTTCCGTTTGGATCCTGCAAAATGGGGAGCGATAAAATTTGTTTCTGACTCTGTCTATTCATACATAGAGTGGTTTACTGTGTCTTTTCCCGAGGTTCTTGTGAATTCAGCTGTACATTTGGAAACATTTTCAGAATTTTCTGCTTCAGTAAATGTATTTATTGTCTTATCAATAAGCTTTTCTCAACCTGGTGCCTTTTACCGAAAATTAAATTTTTTGGACCCAATCTGGGAGGAAGGCATATCGTTGATGTTTGCTATAACCATTCAGTATGGTCTATGTGAAAAGTACCTACCATCTTTGTTTAAATTCGGCATGCTATTTTTTGTAGTTAATGTGCAGTCTCTCTCTGGATCACCGGCTAACTTTCAGGCATATACTGCATTATTAAAACCTCATGAGAGAATTATGGCTCTTGATTTACCACATGGTGGCCACCTTTCGCATGGTTATCAGACTGATACCAAGAAGATTTCGGCTGTTTCAATATTCTTCGAGACAATGCCATATAGGTTGGATGAGAGCACTGGTTACATTGACTATGACCAGTTGGAGAGAAGTGCATCATTGTTTCGACCAAAACTCATTGTTGCTGGTGCAAGTGCCTATGCCCGGCTCTATGACTATGCACGAATTCGCAAGGTTTGTGACAAACAGAAGGCAGTCATGTTGGCTGACATGGCACACATTAGTGGTTTAGTTGCAGCAGGCGTTATTCCATCTCCTTTTGAATATGCTGATATTGTGACAACAACCACACATAAATCCTTACGTGGACCACGGGGGGCAATGATTTTCTTCCGGAAGGGCGTTAAAGAGATCAACAAAAAAGGACAGGAAGTGCTCTATGACTATGAAGACAAAATTAATCAGGCTGCCACAACTTCGGAATACAAAGCCTATCAAGAGCAGGTATGCAGAGGAAAATTTCTGACTTCTTTGGCAAATCACCAATATAATACTCTTCAACAAAGTTTGATTGAGAAGGGCTATGAACTTGTATCTGGTGGAACGGACAACCATCTGGTCCTTGTGAATTTGAAAAATAAGGTGTTTGTGTTTCTCCTTTCTTCAGGTGTTTCTGTTTATTTAGTGCTGGGTGCTAACTTTACAAATATAAAGACAGGTATTGATGGTTCAAGAGTCGAGAAAGTTTTGGAATCAGTTCATATTGCGGCTAATAAGAACACAGTTCCAGGAGACGTGTCTGCCATGGTTCCTGGTGGCATCCGTATGGGGACCCCTGCTCTGACTTCGAGAGGTTTCCTGGAAGCAGATTTCGTGAAAGTTGCTGAATTCTTTGATGAAGCTGTGAAGTTAGCCTTGAAGATTAAGGCTGGTAGCGAAGGTACTAAGTTGAAGGATTTCGTAGCAACCATGCAATCAAATAAAGATTTCCAATCTGAAATTTCAAAGCTTCGACATCAGGTTGAGGAGTATGCCAAGCAATTTCTAACAATAGGTTTTGAGAAAGAGACAATGAGATACAGAGACTGA 2139 43.2 MESLSQSSSFSWERDAGLPRQVTEAKPAKWKIGENGSHQQSLWASVTNLLTPLRTADNGRAPNQNPAEPFTHFHIGEPTITDGNQWLWLSEESPSAKPILPLVNARFLHHMSSLSGAAAEESEKARATWTKQLNAPLEVIDPEIADIIELEKARQWKGLELIPSENFTSSSVMEAVGSVMTNKYSEGYPGARYYGGNEYIDMAESLCQKRALEAFRLDPAKWGAIKFVSDSVYSYIEWFTVSFPEVLVNSAVHLETFSEFSASVNVFIVLSISFSQPGAFYRKLNFLDPIWEEGISLMFAITIQYGLCEKYLPSLFKFGMLFFVVNVQSLSGSPANFQAYTALLKPHERIMALDLPHGGHLSHGYQTDTKKISAVSIFFETMPYRLDESTGYIDYDQLERSASLFRPKLIVAGASAYARLYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPFEYADIVTTTTHKSLRGPRGAMIFFRKGVKEINKKGQEVLYDYEDKINQAATTSEYKAYQEQVCRGKFLTSLANHQYNTLQQSLIEKGYELVSGGTDNHLVLVNLKNKVFVFLLSSGVSVYLVLGANFTNIKTGIDGSRVEKVLESVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFLEADFVKVAEFFDEAVKLALKIKAGSEGTKLKDFVATMQSNKDFQSEISKLRHQVEEYAKQFLTIGFEKETMRYRD 712
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
8 18989850 19002261 + Lsi08G010410.1 Lsi08g01041 668967

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi08g01041 712 Pfam Serine hydroxymethyltransferase 307 564 IPR039429 -
Lsi08g01041 712 Pfam Serine hydroxymethyltransferase 138 224 IPR039429 -
Lsi08g01041 712 Pfam Serine hydroxymethyltransferase 571 647 IPR039429 -
Lsi08g01041 712 PANTHER SERINE HYDROXYMETHYLTRANSFERASE 506 711 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
Lsi08g01041 712 CDD SHMT 141 674 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
Lsi08g01041 712 PANTHER SERINE HYDROXYMETHYLTRANSFERASE, MITOCHONDRIAL 506 711 - -
Lsi08g01041 712 Coils Coil 677 697 - -
Lsi08g01041 712 MobiDBLite consensus disorder prediction 1 37 - -
Lsi08g01041 712 PANTHER SERINE HYDROXYMETHYLTRANSFERASE 305 507 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
Lsi08g01041 712 PANTHER SERINE HYDROXYMETHYLTRANSFERASE 104 229 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
Lsi08g01041 712 PANTHER SERINE HYDROXYMETHYLTRANSFERASE, MITOCHONDRIAL 104 229 - -
Lsi08g01041 712 SUPERFAMILY PLP-dependent transferases 127 224 IPR015424 -
Lsi08g01041 712 ProSitePatterns Serine hydroxymethyltransferase pyridoxal-phosphate attachment site. 461 477 IPR019798 GO:0030170
Lsi08g01041 712 Gene3D Aspartate Aminotransferase, domain 1 141 165 IPR015422 GO:0003824
Lsi08g01041 712 SUPERFAMILY PLP-dependent transferases 307 699 IPR015424 -
Lsi08g01041 712 Gene3D - 166 224 IPR015421 GO:0003824
Lsi08g01041 712 Gene3D - 307 506 IPR015421 GO:0003824
Lsi08g01041 712 PANTHER SERINE HYDROXYMETHYLTRANSFERASE, MITOCHONDRIAL 305 507 - -
Lsi08g01041 712 Gene3D Aspartate Aminotransferase, domain 1 510 706 IPR015422 GO:0003824
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi08g01041 K00600 glyA, SHMT; glycine hydroxymethyltransferase [EC:2.1.2.1] - csv:101222345 631.328
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi07g00316 Lsi-Chr7:3373962 Lsi08g01041 Lsi-Chr8:18989850 2.14E-39 dispersed
Lsi08g01041 Lsi-Chr8:18989850 Lsi09g01128 Lsi-Chr9:18119525 5.74E-35 dispersed
Lsi05g00172 Lsi-Chr5:2428568 Lsi08g01041 Lsi-Chr8:18989850 2.43E-17 transposed
Lsi01g00827 Lsi-Chr1:6561961 Lsi08g01041 Lsi-Chr8:18989850 6.14E-58 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
Vvi18g553 Blo01g01790 . . . . . . . . . . . . . Sed07g1476 . . Bhi04g00909 Tan02g2503 . . Hepe10g0407 . Lcy13g1458 Cla08g01180 Cam08g1645 Cec08g1219 Cco08g1340 Clacu08g1340 . Cre08g1126 . . . . . . . Cme03g01782 . Blo18g00098 . . . . Bma01g01367 . . . . . . . . . . . . . . . . . . . . . . . . Lsi08g01041 Csa02g02227 Chy03g01290 .
       

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
Lsi08g01041 Lsi_Chr08 FPKM 88.118385 107.363625 11.168012 10.028817 26.136936 27.829315 26.846645 0.470629 0.120072 0.210843