Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi06g00024 ATGACAAGGAAGAAAGTGAAACTTGCTTACATTGCAAATGACTCTGCAAGAAAGGCAACATTCAAGAAGAGGAAGAGAGGGCTAATGAAGAAGGTTAGTGAATTGAGCACTCTTTGTGGGATTGAGGCTTGTGCAATCGTCTTTAGTCCCTACGATTCTCAGCCTGAGCTCTGGCCTTCCCCTATTGGAGTCCAACGCGTTCTCTCTCAGTTCAAAAAGATGCCCGAGATGGAACAGAGCAAAAAGATGGTGAACCAAGAGACGTTTCTGCGGCAGAGGATCGCAAAAGCGAACGAGCAATTGAAGAAGATGAGAAAGGACAACCGGGAGAAGGAGATCACACGGCTGATGTTTCAGAGCCTCACTGCAGCAAAAGGGCTGCATGGTCTCAACATGCTTGATTTGAACGACCTCGGTTGGCTCATCGATCAGAATCTTAAAGACATTGTTACACGTATTGACTCACTGAAAAAGCCTTCGACGCAGCTTCAACCTCAGGCTCAGCCTCCGCCTCCGTCTCAACCACCACAAACTCAGCCGCAGACGGCGGCGTGGCTGATGGAGCTTGTGAGCCCTCAGGATCAAATGGGGTTTGTTGGGGATGATATGCTTTCGCCTTTTGGGGATCAAACTTATAACCCTAATAATGCAATGTGGTCCAATGCCTTTTTCCCTTAG 678 48.08 MTRKKVKLAYIANDSARKATFKKRKRGLMKKVSELSTLCGIEACAIVFSPYDSQPELWPSPIGVQRVLSQFKKMPEMEQSKKMVNQETFLRQRIAKANEQLKKMRKDNREKEITRLMFQSLTAAKGLHGLNMLDLNDLGWLIDQNLKDIVTRIDSLKKPSTQLQPQAQPPPPSQPPQTQPQTAAWLMELVSPQDQMGFVGDDMLSPFGDQTYNPNNAMWSNAFFP 225
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 234115 235027 + Lsi06G000240.1 Lsi06g00024 664754

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi06g00024 225 PRINTS MADS domain signature 3 23 IPR002100 GO:0003677|GO:0046983
Lsi06g00024 225 PRINTS MADS domain signature 38 59 IPR002100 GO:0003677|GO:0046983
Lsi06g00024 225 PRINTS MADS domain signature 23 38 IPR002100 GO:0003677|GO:0046983
Lsi06g00024 225 SUPERFAMILY SRF-like 2 95 IPR036879 GO:0003677|GO:0046983
Lsi06g00024 225 PANTHER AGAMOUS-LIKE MADS-BOX PROTEIN AGL80 1 185 - -
Lsi06g00024 225 PANTHER SERUM RESPONSE FACTOR HOMOLOG 1 185 - -
Lsi06g00024 225 ProSiteProfiles MADS-box domain profile. 1 49 IPR002100 GO:0003677|GO:0046983
Lsi06g00024 225 Pfam SRF-type transcription factor (DNA-binding and dimerisation domain) 10 51 IPR002100 GO:0003677|GO:0046983
Lsi06g00024 225 MobiDBLite consensus disorder prediction 164 178 - -
Lsi06g00024 225 CDD MADS_SRF_like 2 85 IPR033897 GO:0000981|GO:0000987|GO:0045944
Lsi06g00024 225 Gene3D - 13 115 IPR036879 GO:0003677|GO:0046983
Lsi06g00024 225 Coils Coil 87 114 - -
Lsi06g00024 225 MobiDBLite consensus disorder prediction 159 180 - -
Lsi06g00024 225 SMART madsneu2 1 60 IPR002100 GO:0003677|GO:0046983
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi06g00024 - - - csv:101203059 398.667
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi02g01097 Lsi-Chr2:12461068 Lsi06g00024 Lsi-Chr6:234115 1.53E-77 dispersed
Lsi03g01808 Lsi-Chr3:29508306 Lsi06g00024 Lsi-Chr6:234115 5.32E-41 dispersed
Lsi06g00024 Lsi-Chr6:234115 Lsi10g00750 Lsi-Chr10:10337886 4.36E-13 dispersed
Lsi06g00024 Lsi-Chr6:234115 Lsi08g01026 Lsi-Chr8:18835515 2.84E-12 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
Vvi14g25 . . . . . . . . Cmo10g01262 . . . . . . . . . . . . . . . . . . . . . . . . . . Lsi06g00024 . . . . . . . . . . . . . . Cma10g01184 . Car10g01041 . . . . . . . . . . Cla03g01710 Cam03g1800 Cec03g1848 Cco03g1853 Clacu03g1822 Cmu03g2370 Cre03g2051 . Csa01g02690 . Cme02g00013
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi03g01001 . 1 165 Type I MADS-box Gene Family AT5G60440 61.9 2.7e-50 196.1
Lsi06g00024 . 1 163 Type I MADS-box Gene Family AT5G48670 64.4 1.9e-54 209.9
Lsi02g01097 . 1 157 Type I MADS-box Gene Family AT5G48670 55.4 4.3e-46 182.2
Lsi03g01001 . 1 165 Type I MADS-box Gene Family AT5G60440 61.9 2.7e-50 196.1
Lsi06g00024 . 1 163 Type I MADS-box Gene Family AT5G48670 64.4 1.9e-54 209.9
Lsi02g01097 . 1 157 Type I MADS-box Gene Family AT5G48670 55.4 4.3e-46 182.2
Lsi03g01001 . 1 165 Type I MADS-box Gene Family AT5G60440 61.9 2.7e-50 196.1
Lsi06g00024 . 1 163 Type I MADS-box Gene Family AT5G48670 64.4 1.9e-54 209.9
Lsi02g01097 . 1 157 Type I MADS-box Gene Family AT5G48670 55.4 4.3e-46 182.2
Lsi03g01001 . 1 165 Type I MADS-box Gene Family AT5G60440 61.9 2.7e-50 196.1
Lsi06g00024 . 1 163 Type I MADS-box Gene Family AT5G48670 64.4 1.9e-54 209.9
Lsi02g01097 . 1 157 Type I MADS-box Gene Family AT5G48670 55.4 4.3e-46 182.2
       

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
OG0001414 5 4 2 4 3 2 4 2 2 2 2 2 2 2 3 2 2 3 4 2 2 3 2 2 2 2 2 2 2 1 74
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25451 PF00319 SRF-TF 6.50E-19 No_clan Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi06g00024 Lsi_Chr06 FPKM 11.442869 12.420511 13.471681 13.388378 19.015503 19.676842 19.766191 27.878075 31.544973 28.747395