Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lcy13g1458 ATGGCTATGGCTCTTCGAAGGCTCGCCGTCGGCGTTACGAAACCCAATGTTTCTCTCCTCAATGCCCGGTTCCTCCATCACATGTCTTCTCTGTCCGGGGCCGCTGCGGAGGAAAGGGAGAAGGCTCGAGCTACTTGGATTAAGCAGCTGAACGCCCCTCTCGAGGTCATTGATCCGGAAATTGCAGATATTATTGAGCTTGAGAAAGCTCGTCAATGGAAGGGTCTTGAACTCATACCTTCTGAGAATTTCACTTCATCATCAGTGATGGAAGCAGTTGGTTCAGTTATGACCAACAAATATAGTGAAGGATATCCAGGTGCCAGATACTATGGAGGAAATGAGTACATTGATATGGCCGAATCCTTGTGCCAGAAACGTGCACTAGAAGCTTTCCGTTTGGACCCTGCAAAATGGGGAGTTAACGTGCAGTCTCTCTCTGGATCACCGGCTAACTTTCAGGCATATACTGCATTATTAAAACCTCATGAGAGGATTATGGCTCTTGATTTACCACATGGTGGACACCTTTCGCATGGTTATCAGACTGATACCAAGAAGATTTCTGCTGTTTCAATATTCTTTGAGACGATGCCATATAGGTTGGATGAGAGCACTGGTTACATTGACTATGATCAGTTGGAGAGAAATGTGGCATTGTTTCGACCAAAACTTATTGTTGCGGGTGCAAGTGCCTATGCCCGTCTCTATGACTATGCGCGAATTCGCAAGGTCTGTGACAAACAGAAGGCAGTCATGTTGGCTGACATGGCACACATTAGTGGTTTAGTTGCAGCAGGCGTTATTCCATCTCCTTTTGAATATGCTGATATTGTGACAACAACCACACATAAGTCCTTACGTGGACCACGAGGGGCAATGATTTTCTTCCGGAAGGGCGTTAAAGAGATCAACAAAAAAGGACAGGAAGTGCTCTATGACTATGAAGACAAAATTAATCAGGCTGTATTTCCTGGTCTTCAAGGTGGCCCACACAACCACACCATAGCTGGTCTAGCAGTTGCACTAAAGCAGGCCACAACTCCGGAATACAAAGCCTACCAAGAGCAGGTTCTCAGTAATTGTTCAAAATTTGCTCAGAGTTTGATTGAGAAGGGCTATGAACTTGTATCTGGTGGAACTGACAACCATTTAGTCCTTGTGAACTTGAAAAATAAGGGTATTGATGGTTCAAGAGTCGAGAAGGTTTTGGAATCAGTTCATATTGCGGCTAACAAGAATACAGTTCCAGGGGACGTGTCTGCCATGGTTCCTGGTGGCATCCGCATGGGAACCCCTGCTCTGACTTCGAGAGGTTTCCTCGAGGCAGATTTTGTGAAAGTAGCTGAATTCTTTGATGAAGCTGTGAAGTTGGCCTTGAAGATTAAGGCTGATAGCGAAGGTACTAAGTTGAAGGATTTCGTGGCAACCATGCAATCAAATAAAGACTTCCAATCTGAAATTTCAAAGCTCCGACATCAGGTTGAGGAATATGCCAAGCAATTTCCAACAATAGGTTTTGAGAAAGAGACAATGAGATACAGAGACTGA 1551 44.87 MAMALRRLAVGVTKPNVSLLNARFLHHMSSLSGAAAEEREKARATWIKQLNAPLEVIDPEIADIIELEKARQWKGLELIPSENFTSSSVMEAVGSVMTNKYSEGYPGARYYGGNEYIDMAESLCQKRALEAFRLDPAKWGVNVQSLSGSPANFQAYTALLKPHERIMALDLPHGGHLSHGYQTDTKKISAVSIFFETMPYRLDESTGYIDYDQLERNVALFRPKLIVAGASAYARLYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPFEYADIVTTTTHKSLRGPRGAMIFFRKGVKEINKKGQEVLYDYEDKINQAVFPGLQGGPHNHTIAGLAVALKQATTPEYKAYQEQVLSNCSKFAQSLIEKGYELVSGGTDNHLVLVNLKNKGIDGSRVEKVLESVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFLEADFVKVAEFFDEAVKLALKIKADSEGTKLKDFVATMQSNKDFQSEISKLRHQVEEYAKQFPTIGFEKETMRYRD 516
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
13 33143775 33149101 - Maker00034113 Lcy13g1458 651763

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lcy13g1458 516 PANTHER SERINE HYDROXYMETHYLTRANSFERASE 36 509 IPR049943 GO:0004372(PANTHER)|GO:0005737(PANTHER)|GO:0006565(PANTHER)|GO:0006730(PANTHER)|GO:0008270(PANTHER)|GO:0019264(PANTHER)|GO:0030170(PANTHER)|GO:0046653(PANTHER)|GO:0046655(PANTHER)|GO:0050897(PANTHER)|GO:0070905(PANTHER)
Lcy13g1458 516 FunFam Serine hydroxymethyltransferase 344 504 - -
Lcy13g1458 516 FunFam Serine hydroxymethyltransferase 83 356 - -
Lcy13g1458 516 Coils Coil 481 501 - -
Lcy13g1458 516 Gene3D Aspartate Aminotransferase, domain 1 58 503 IPR015422 -
Lcy13g1458 516 Pfam Serine hydroxymethyltransferase 55 451 IPR039429 -
Lcy13g1458 516 Gene3D - 83 356 IPR015421 -
Lcy13g1458 516 CDD SHMT 58 478 IPR001085 GO:0004372(InterPro)|GO:0019264(InterPro)|GO:0030170(InterPro)|GO:0035999(InterPro)
Lcy13g1458 516 ProSitePatterns Serine hydroxymethyltransferase pyridoxal-phosphate attachment site. 277 293 IPR019798 GO:0030170(InterPro)
Lcy13g1458 516 SUPERFAMILY PLP-dependent transferases 50 506 IPR015424 -
Lcy13g1458 516 Hamap Serine hydroxymethyltransferase [glyA]. 53 506 IPR001085 GO:0004372(InterPro)|GO:0019264(InterPro)|GO:0030170(InterPro)|GO:0035999(InterPro)
Lcy13g1458 516 PIRSF SHMT 35 511 IPR001085 GO:0004372(InterPro)|GO:0019264(InterPro)|GO:0030170(InterPro)|GO:0035999(InterPro)
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lcy13g1458 K00600 - - csv:101222345 990.719
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lcy13g1458 Lcy-Chr13:33143775 Lcy6g0571 Lcy-Chr6:5423101 9.96E-139 dispersed
Lcy6g0570 Lcy-Chr6:5420008 Lcy13g1458 Lcy-Chr13:33143775 7.35E-22 transposed
Lcy6g0723 Lcy-Chr6:7018645 Lcy13g1458 Lcy-Chr13:33143775 1.08E-197 transposed
Lcy9g1596 Lcy-Chr9:41146255 Lcy13g1458 Lcy-Chr13:33143775 1.09E-164 transposed
Lcy1g0851 Lcy-Chr1:7273624 Lcy13g1458 Lcy-Chr13:33143775 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
Vvi4g58 . . . . . . . . . . . . . . Sed07g1476 Cpe07g00154 . Bhi04g00909 Tan02g2503 . . Hepe10g0407 . Lcy13g1458 . . . . . . . . . . . . . . . . . . . . . . . . . . . Cma12g00180 . . . . . . . . . . . Cla08g01180 Cam08g1645 Cec08g1219 Cco08g1340 Clacu08g1340 . Cre08g1126 . Csa02g02227 . .
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