Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi10g00600 ATGGCTTCCTCAACGCCTCCCCACTTCTTCAAAGTCATTCTTTCTTACACACTCACTCAACAGAAGCTTGAAGTTCCAACTAAATTTGTGAGATTATATGGAGAAGCTCTGAAATCTGAGGAGATTTGGCTTAAAGTAGTGAATGGAGTAAGGTGGAAAATAGGATTAGAAAAAAGTAACCAAAAAGTATGGTTAAAAAAAGGGTGGGCAGAGTTTGTAAGGTTTTATTCTATTAATATTGGTCATTTTATAGTATTCACATATGAAGGCAACTCTTGCTTTCATGTTCTTATATTTGATAAAACTGCTACTGGGATTGAATATCCAATTGCTTCTAGAGAATTTCATAACAAAAAAAGGTCTGAGGAAGGGGGAAATATTAAAGACTTTCAAATAATGTCTGTTAAAAGAGAGAAAGAATTTGAAGAAAATGGATGTGCCCAAATATTGGGCAACAACAAGAGATCAAGAAAGGAAGATAAAAGTAATAATGTTGCTCAAAATTTGCATTCACTGAATCCTAAGAACATGAAAAGAAGTGATCAAGCAGGTGGGAGTAAAGTCATTTGCAAAAAAGTGGAGCTGAAGAAGGAAGATTTACACTCTTCTGGATTGAAAATAGATTGGAAACCCTTCCAAGAGAGAAATAAAGTGAAGAAGCCAACAATTGCAACCCAAGAAGCAAGAATAAATAATGAAAAAGCTTCAAAATTCAAATCACTAACCAAAAATCCTTCTTTTATGTGTATTCCAATAGGTTTTGGAAATACTCACTTGAGGAAGAACAAAAAATTGACTCTGCAAGTTTCAGATGGAAATTGTTGGAAGGTTAAGTGTGTTGAACGTTGGTATTCCAATATACAAAGATTTGAAATGGGTAATGGTTGGAGGAAATTTGCAAGAGATAATAATTTGAAAGAAGGTGATATTTGTGTTTTTGAATTGATGAAAAACATTCAAATATCCTTTAAAACTACCATTTTCCGATTGGATTTG 996 33.23 MASSTPPHFFKVILSYTLTQQKLEVPTKFVRLYGEALKSEEIWLKVVNGVRWKIGLEKSNQKVWLKKGWAEFVRFYSINIGHFIVFTYEGNSCFHVLIFDKTATGIEYPIASREFHNKKRSEEGGNIKDFQIMSVKREKEFEENGCAQILGNNKRSRKEDKSNNVAQNLHSLNPKNMKRSDQAGGSKVICKKVELKKEDLHSSGLKIDWKPFQERNKVKKPTIATQEARINNEKASKFKSLTKNPSFMCIPIGFGNTHLRKNKKLTLQVSDGNCWKVKCVERWYSNIQRFEMGNGWRKFARDNNLKEGDICVFELMKNIQISFKTTIFRLDL 332
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
10 8622330 8624838 + Lsi10G006000.1 Lsi10g00600 672157

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi10g00600 332 Pfam B3 DNA binding domain 246 329 IPR003340 GO:0003677
Lsi10g00600 332 Pfam B3 DNA binding domain 9 101 IPR003340 GO:0003677
Lsi10g00600 332 PANTHER B3 DOMAIN-CONTAINING TRANSCRIPTION FACTOR VRN1-LIKE 3 329 - -
Lsi10g00600 332 CDD B3_DNA 7 100 IPR003340 GO:0003677
Lsi10g00600 332 SMART B3_2 9 102 IPR003340 GO:0003677
Lsi10g00600 332 SMART B3_2 238 331 IPR003340 GO:0003677
Lsi10g00600 332 ProSiteProfiles B3 DNA-binding domain profile. 8 102 IPR003340 GO:0003677
Lsi10g00600 332 PANTHER B3 DOMAIN-CONTAINING 3 329 - -
Lsi10g00600 332 MobiDBLite consensus disorder prediction 165 180 - -
Lsi10g00600 332 Gene3D - 1 103 IPR015300 -
Lsi10g00600 332 Gene3D - 220 331 IPR015300 -
Lsi10g00600 332 MobiDBLite consensus disorder prediction 152 184 - -
Lsi10g00600 332 SUPERFAMILY DNA-binding pseudobarrel domain 240 323 IPR015300 -
Lsi10g00600 332 SUPERFAMILY DNA-binding pseudobarrel domain 3 102 IPR015300 -
Lsi10g00600 332 CDD B3_DNA 238 329 IPR003340 GO:0003677
Lsi10g00600 332 ProSiteProfiles B3 DNA-binding domain profile. 233 331 IPR003340 GO:0003677
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi10g00600 - - - mcha:111024773 241.121
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Lsi01g01015 Lsi10g00600 CCT
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g01605 Lsi-Chr4:23557558 Lsi10g00600 Lsi-Chr10:8622330 1.93E-06 dispersed
Lsi07g00144 Lsi-Chr7:1549760 Lsi10g00600 Lsi-Chr10:8622330 1.63E-42 dispersed
Lsi10g00591 Lsi-Chr10:8560812 Lsi10g00600 Lsi-Chr10:8622330 3.07E-55 dispersed
Lsi10g00598 Lsi-Chr10:8610032 Lsi10g00600 Lsi-Chr10:8622330 4.44E-21 dispersed
Lsi10g00599 Lsi-Chr10:8617590 Lsi10g00600 Lsi-Chr10:8622330 2.88E-109 tandem
       

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
Vvi3g506 . . . . . . Bma05g00507 . . . Cma02g00430 Cma20g00883 Car02g00285 Car20g00761 . . . . . . . . . . . . . . . . . Cone12ag1121 Cone8ag1166 Cone3ag1121 . Lsi10g00600 . Chy11g00424 . Blo04g00496 Blo13g00560 . . Bpe15g00884 . Bma03g00530 . Sed01g0327 Cmo02g00432 Cmo20g00891 . . . . . Cpe05g01232 Bhi10g02065 Tan05g1371 Cmetu11g0349 . Hepe08g1052 . . Cla09g01731 Cam09g1826 Cec09g1885 Cco09g1978 . . Cre01g0683 . Csa02g01212 . Cme11g00493
Vvi7g848 . . . . . . . . . . . Cma20g01138 . Car20g00981 . . Cpe16g00020 . . . . . . . . . . . . . . . . . . Lsi01g01015 . . . . . . . . . . . . . Cmo20g01171 . . . . . . . . . . . . . . . . . . . . Lsi10g00600 . . .
       

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
OG0000306 0 5 1 2 2 5 2 4 6 5 5 4 3 5 6 3 4 6 3 5 4 6 6 7 9 5 5 9 5 1 133
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
26035 PF02362 B3 1.30E-15 CL0405 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi10g00600 Lsi_Chr10 FPKM 33.255444 29.855227 32.095253 33.293415 26.392544 26.314468 24.790773 20.969772 22.322239 19.388453