Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi08g01398 ATGTCCTTTTCATCACGCTCCGCAAAGCTCACCCTTCTAGCTCTTCTCTCTGCCTCAACCTTGTATTGTTTCTACAAGTCCCGCCGTCTCAGAAAGCTTAAACTCTCCTTAAACCCTACTCTTTGTTCTCGAAGACCCAAACTATTTTTTATTTCTCAAACTGGTACCTCCAAAGCCCTAGCTCATCGTCTGCTTAACGTTTTGAATTCCAATGGGTTGGTATTTGATCTTGTCGATCCCAAGGATTATGAGCCTGAAGATCTTTTTAAGGAGACTTTAGTTTTGTTCGTTGCTTCCACTTGGGAAGATGGAGGACCGCCGCCTCATGCTAAATTTCTTGCTAATTGGCTTTCTGAAAGTGCGGAGGATTTTAGAGTTGGTTCGTTGTTGCTTTCTCCGTGTAAATTTGCTGTGTTTGGCGTTGGTAGTCGAGCTTATGGAGAGACATTCAATGCGGTTGCAAGGGATTTTTCTAAGCGGATGAAGGCATTGGGTGCGAAGGAGATTTTAGCGGTTGGTGAAGGAGACGTTGATGGAGGTAATATAGATAAGTGTTTTGATGATTGGAGTCGGCAATTGCTGAAGGTTGTGAAGGTTGATGCGGTGGGAACTGGTGTGGATTTATATTCTGGGATTGCTGGGGACAGTGATGCTGAGAGCGTTGAGGAGGATGAAGAAGATACCGACAATGGGGAGGAGGACATCGTTGATCTCGAGGATATTGCTGGGAAGGGTCCTTCGAGAAAGTCTACGAATGTAGTCGAAACTAATGGGAAATTGAATGGGAAAAAGGTTATGGTGACCCCGGTGATTAGAGCGAGCTTAGAAAAGCAGGGATATAAAATTATTGGCTCACATAGCGGAGTGAAGATATGTAGATGGACAAAGTCTCAGCTTCGAGGACGAGGAGGCTGCTATAAACATTCATTTTATGGCATAGAAAGTCATCGATGCATGGAGGCAACTCCCAGTTTGGCTTGTGCCAACAAATGTGTTTTCTGCTGGAGGCATCACACAAATCCAGTAGGAAAGAGTTGGCAGTGGGAGATGGATGCTCCATTGGATATTGTGAATTCGGCAATCGATTTACACACAAAAATGATCAAGCAAATGAAAGGTGTTCCAGGTGTTACGCAGGAGAAATTGGACGAAGGCCTGTCTCCAAGACATTGTGCCTTATCTCTTGTTGGTGAACCTATTATGTACCCAGAGATTAATACTCTTGTTGATGAATTGCATCGAAGGCGGATTTCAACTTTCTTGGTAACAAATGCTCAGTTTCCCGATAAAATAAAATTGCTGAAGCCAGTCACCCAGTTGTATGTAAGTGTAGATGCTGCGACAAAGGAGAGCTTGAAGGCCATTGATAGACCACTTTTTGGAGACTTCTGGGAGCGATTCATTGATTCCTTGAAAGCTCTAAATGACAAGCAACAGCGAACAGTTTATCGATTGACGTTGGTAAAAGGGTGGAACACAGAAGATATTGATGCCTATTCAAATCTCTTTAGCATTGGTAGACCTGATTTTGTAGAAATCAAAGGCGTCACATATTGTGGATCATCTAATACTTCAAAGCTGACAATGGAGAACGTTCCTTGGCATTCTGACGTCAAGTCTTTTTCTGAGGCTTTAGCTGCAAAAAGTCAAGGGGAGTATGAAGTTGCTTGTGAGCATGTGCACTCATGTTGCGTTCTTTTGGCTAAGACTGACAAATTTAGGGTCGATGGCCAGTGGTTCACTTGGATAGATTATGAGAAATTCCATGACCTGGTGGCCTCTGGAAAACCTTTTGATAGCAAGGACTACATGGCTCCAACACCATCATGGGCTGTATATGGCTCTGACGAAGGTGGATTTGATCCTGATCAATCTCGGTACCGGAAGGAGCGACATCATAGACCAAAACCCACATCTTGA 1920 43.75 MSFSSRSAKLTLLALLSASTLYCFYKSRRLRKLKLSLNPTLCSRRPKLFFISQTGTSKALAHRLLNVLNSNGLVFDLVDPKDYEPEDLFKETLVLFVASTWEDGGPPPHAKFLANWLSESAEDFRVGSLLLSPCKFAVFGVGSRAYGETFNAVARDFSKRMKALGAKEILAVGEGDVDGGNIDKCFDDWSRQLLKVVKVDAVGTGVDLYSGIAGDSDAESVEEDEEDTDNGEEDIVDLEDIAGKGPSRKSTNVVETNGKLNGKKVMVTPVIRASLEKQGYKIIGSHSGVKICRWTKSQLRGRGGCYKHSFYGIESHRCMEATPSLACANKCVFCWRHHTNPVGKSWQWEMDAPLDIVNSAIDLHTKMIKQMKGVPGVTQEKLDEGLSPRHCALSLVGEPIMYPEINTLVDELHRRRISTFLVTNAQFPDKIKLLKPVTQLYVSVDAATKESLKAIDRPLFGDFWERFIDSLKALNDKQQRTVYRLTLVKGWNTEDIDAYSNLFSIGRPDFVEIKGVTYCGSSNTSKLTMENVPWHSDVKSFSEALAAKSQGEYEVACEHVHSCCVLLAKTDKFRVDGQWFTWIDYEKFHDLVASGKPFDSKDYMAPTPSWAVYGSDEGGFDPDQSRYRKERHHRPKPTS 639
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
8 22253096 22263853 + Lsi08G013980.1 Lsi08g01398 669324

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi08g01398 639 SUPERFAMILY Flavoproteins 47 197 IPR029039 -
Lsi08g01398 639 Pfam Flavodoxin 48 189 IPR008254 GO:0010181
Lsi08g01398 639 SFLD tRNA wybutosine-synthesizing 262 574 IPR034556 GO:0008033|GO:0051539
Lsi08g01398 639 Pfam Wyosine base formation 506 569 IPR013917 -
Lsi08g01398 639 SFLD tRNA wybutosine-synthesizing 262 574 - -
Lsi08g01398 639 PANTHER S-ADENOSYL-L-METHIONINE-DEPENDENT TRNA 4-DEMETHYLWYOSINE SYNTHASE 3 633 - -
Lsi08g01398 639 Gene3D - 26 203 IPR029039 -
Lsi08g01398 639 Gene3D Aldolase class I 250 581 IPR013785 -
Lsi08g01398 639 Pfam Radical SAM superfamily 323 501 IPR007197 GO:0003824|GO:0051536
Lsi08g01398 639 ProSiteProfiles Flavodoxin-like domain profile. 46 194 IPR008254 GO:0010181
Lsi08g01398 639 CDD Radical_SAM 323 495 - -
Lsi08g01398 639 MobiDBLite consensus disorder prediction 601 639 - -
Lsi08g01398 639 SUPERFAMILY Radical SAM enzymes 324 503 - -
Lsi08g01398 639 PANTHER S-ADENOSYL-L-METHIONINE-DEPENDENT TRNA 4-DEMETHYLWYOSINE SYNTHASE 3 633 IPR034556 GO:0008033|GO:0051539
Lsi08g01398 639 PRINTS Flavodoxin signature 47 60 IPR001094 GO:0010181
Lsi08g01398 639 PRINTS Flavodoxin signature 133 143 IPR001094 GO:0010181
Lsi08g01398 639 PRINTS Flavodoxin signature 158 177 IPR001094 GO:0010181
Lsi08g01398 639 PRINTS Flavodoxin signature 95 106 IPR001094 GO:0010181
Lsi08g01398 639 ProSiteProfiles Radical SAM core domain profile. 311 554 IPR007197 GO:0003824|GO:0051536
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi08g01398 K15449 TYW1; tRNA wybutosine-synthesizing protein 1 [EC:4.1.3.44] - csv:101217239 1208.74
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi07g00127 Lsi-Chr7:1416143 Lsi08g01398 Lsi-Chr8:22253096 9.54E-09 dispersed
Lsi11g00758 Lsi-Chr11:8534882 Lsi08g01398 Lsi-Chr8:22253096 7.84E-09 dispersed
Lsi08g01398 Lsi-Chr8:22253096 Lsi06g01176 Lsi-Chr6:22043463 4.00E-06 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
Vvi18g939 . . . . . . . . Cmo05g00245 . . . . . Sed11g1032 . . Bhi04g00248 Tan02g1957 Cmetu03g0117 . Hepe10g0647 . Lcy13g1990 Cla08g01493 Cam08g1982 Cec08g1556 Cco08g1693 Clacu08g1672 . Cre08g1455 . . Cone17ag1338 . . . . Cme03g01960 Blo17g00803 . Bda08g01288 . . Bpe05g00087 . Bma05g00116 . . . . Cma05g00237 Car05g00199 . Cpe11g00197 . . . . . . . . . . . . . . . Lsi08g01398 Csa02g02049 Chy03g01465 .
       

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
OG0009285 1 2 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 3 2 1 34