Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi08g00040 ATGGCTCGTGGGAAGGTTCAAATGAAGAAGATTGAGAATCCAGTGCATAGACAAGTCACTTTCTGCAAGCGTCGAGCTGGGCTTCTTAAGAAGGCTAAGGAGCTCTCTGTTCTTTGCGATGCTGAAATTGGAGTTTTCATTTTCTCCGCTCATGGAAAGCTCTATGAACTCGCCACTAAAGGGAATGCTTTGGGAGGAGGAGGAGCTGAAGGAATAATGAGATTGGATGAGCTTGATATGTTTGAGAAGCAACTTGAGATTTGGATTTGTCAAGTGCGTTCTACAAAGATGAAGTTCATGTGTGAAGAGATTGAAGCACTAAGGAACCAGATGGAGGAAAACATTAGCAACACGACTAACATTGAACCTGTGAATATTACTAACTGTCAATATCCACTAACTATACAGGATGAGTTATTTCAGCTTTGCACTTAA 435 41.38 MARGKVQMKKIENPVHRQVTFCKRRAGLLKKAKELSVLCDAEIGVFIFSAHGKLYELATKGNALGGGGAEGIMRLDELDMFEKQLEIWICQVRSTKMKFMCEEIEALRNQMEENISNTTNIEPVNITNCQYPLTIQDELFQLCT 144
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
8 938115 942772 - Lsi08G000400.1 Lsi08g00040 667966

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi08g00040 144 Pfam SRF-type transcription factor (DNA-binding and dimerisation domain) 10 56 IPR002100 GO:0003677|GO:0046983
Lsi08g00040 144 Coils Coil 97 121 - -
Lsi08g00040 144 Pfam K-box region 73 113 IPR002487 GO:0003700|GO:0005634|GO:0006355
Lsi08g00040 144 PRINTS MADS domain signature 23 38 IPR002100 GO:0003677|GO:0046983
Lsi08g00040 144 PRINTS MADS domain signature 38 59 IPR002100 GO:0003677|GO:0046983
Lsi08g00040 144 PRINTS MADS domain signature 3 23 IPR002100 GO:0003677|GO:0046983
Lsi08g00040 144 ProSiteProfiles MADS-box domain profile. 1 61 IPR002100 GO:0003677|GO:0046983
Lsi08g00040 144 PANTHER SERUM RESPONSE FACTOR HOMOLOG 67 141 - -
Lsi08g00040 144 SUPERFAMILY SRF-like 1 60 IPR036879 GO:0003677|GO:0046983
Lsi08g00040 144 SMART madsneu2 1 60 IPR002100 GO:0003677|GO:0046983
Lsi08g00040 144 PANTHER AGAMOUS-LIKE MADS-BOX PROTEIN AGL12 1 61 - -
Lsi08g00040 144 CDD MADS_MEF2_like 2 62 IPR033896 GO:0000977|GO:0045944
Lsi08g00040 144 PANTHER SERUM RESPONSE FACTOR HOMOLOG 1 61 - -
Lsi08g00040 144 Gene3D - 15 112 IPR036879 GO:0003677|GO:0046983
Lsi08g00040 144 PANTHER AGAMOUS-LIKE MADS-BOX PROTEIN AGL12 67 141 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi08g00040 - - - csv:105435626 231.106
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi08g00040 Lsi-Chr8:938115 Lsi09g01915 Lsi-Chr9:27992713 1.63E-26 dispersed
Lsi08g00034 Lsi-Chr8:849912 Lsi08g00040 Lsi-Chr8:938115 5.99E-23 proximal
       

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
Vvi18g1659 . . . . . . . . . . . . . . . Cpe06g01008 . . . . . . . . Cla08g00049 Cam08g0049 Cec08g0201 Cco08g0104 Clacu08g0065 Cmu08g0062 Cre08g0053 . . . . . . . Cme09g00032 . . . . . . . . . . Cmo09g01305 . . . Car09g01147 . . Bhi06g00226 . . . . . . . . . . . . . Lsi08g00040 . . .
       

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
OG0012555 0 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 1 0 1 1 1 2 1 29
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25705 PF01486 K-box 2.50E-08 No_clan Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi08g00040 Lsi_Chr08 FPKM 28.781839 32.628685 35.358299 36.869743 47.110542 46.396805 50.680061 47.529102 45.687332 46.435101