Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi11g01191 ATGGCTGAAAGGGTCAGTGGGAAAGTGAAGTGGTTCAGTGACCAGAAAGGCTATGGCTTCATTTCTCCCAACGATGGAGGTGAAGATCTTTTCGTTCACCAGTCTTCCATCAGATCCGATGGTTTCCGGAGCCTCGGCGTTGGTGAGGATGTCGAGTTTCTGATCGAGGCTGAGTCCGATGGCCGTTCCAAGGCTGTTGATGTTACTGGCCCAGGAGAAGCTTCTGTGCAGGGAAGTCGCGGCGGCGGCGGAGGTGGAGGAGGAGGTGGTTACTCCAGCGGAGGAGGAGGTGGGTATGGTGGAGGAGGCGGCGGTGGAAGGGGGAGACGTGGTGGTGGTGGATATGGGTTTAACGGTGGAAGTGGCGGCGGTGGCCGAGGTGGGTACGGCGGTGGTGGAGGTGGGTATGGTGGTGGGGGTTATGGAGGAAGTGGTGGCGGCGGTGGAGGTGGTGCTTGTTTCAAGTGTGGGGAGACTGGCCATATGGCGAGGGACTGCTACCAGAGTGGATCTCAAGGCGGTGGAGATAGGTACGGCGGAGGTGGTGGTGGCGGTGGCGGTGGAAACTGCTATAGCTGTGGTGAATCTGGGCATTTTGCTAGAGAATGTCCAAGCAGTGGTCGTTGA 627 58.53 MAERVSGKVKWFSDQKGYGFISPNDGGEDLFVHQSSIRSDGFRSLGVGEDVEFLIEAESDGRSKAVDVTGPGEASVQGSRGGGGGGGGGGYSSGGGGGYGGGGGGGRGRRGGGGYGFNGGSGGGGRGGYGGGGGGYGGGGYGGSGGGGGGGACFKCGETGHMARDCYQSGSQGGGDRYGGGGGGGGGGNCYSCGESGHFARECPSSGR 208
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
11 20362963 20363589 + Lsi11G011910.1 Lsi11g01191 674358

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi11g01191 208 PRINTS Cold shock protein signature 28 37 IPR002059 GO:0003676
Lsi11g01191 208 PRINTS Cold shock protein signature 43 61 IPR002059 GO:0003676
Lsi11g01191 208 PRINTS Cold shock protein signature 7 22 IPR002059 GO:0003676
Lsi11g01191 208 ProSiteProfiles Zinc finger CCHC-type profile. 190 205 IPR001878 GO:0003676|GO:0008270
Lsi11g01191 208 SUPERFAMILY Retrovirus zinc finger-like domains 143 206 IPR036875 GO:0003676|GO:0008270
Lsi11g01191 208 MobiDBLite consensus disorder prediction 62 89 - -
Lsi11g01191 208 ProSitePatterns Cold-shock (CSD) domain signature. 18 37 IPR019844 -
Lsi11g01191 208 ProSiteProfiles Cold-shock (CSD) domain profile. 4 70 IPR002059 GO:0003676
Lsi11g01191 208 CDD CSP_CDS 5 70 IPR002059 GO:0003676
Lsi11g01191 208 Gene3D - 1 81 IPR012340 -
Lsi11g01191 208 SMART c2hcfinal6 189 205 IPR001878 GO:0003676|GO:0008270
Lsi11g01191 208 SMART c2hcfinal6 152 168 IPR001878 GO:0003676|GO:0008270
Lsi11g01191 208 Pfam 'Cold-shock' DNA-binding domain 6 70 IPR002059 GO:0003676
Lsi11g01191 208 PANTHER COLD SHOCK PROTEIN 2 119 208 - -
Lsi11g01191 208 ProSiteProfiles Zinc finger CCHC-type profile. 153 166 IPR001878 GO:0003676|GO:0008270
Lsi11g01191 208 PANTHER COLD SHOCK PROTEIN 2 1 112 - -
Lsi11g01191 208 SUPERFAMILY Nucleic acid-binding proteins 2 70 IPR012340 -
Lsi11g01191 208 PANTHER COLD SHOCK DOMAIN PROTEIN 2 119 208 - -
Lsi11g01191 208 SMART csp_8 6 71 IPR011129 GO:0003676
Lsi11g01191 208 Pfam Zinc knuckle 152 166 IPR001878 GO:0003676|GO:0008270
Lsi11g01191 208 Pfam Zinc knuckle 189 205 IPR001878 GO:0003676|GO:0008270
Lsi11g01191 208 Gene3D - 185 208 - -
Lsi11g01191 208 Gene3D - 148 177 - -
Lsi11g01191 208 PANTHER COLD SHOCK DOMAIN PROTEIN 2 1 112 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi11g01191 - - - csv:101205517 155.606
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi09g01039 Lsi-Chr9:15474709 Lsi11g01191 Lsi-Chr11:20362963 5.03E-23 dispersed
Lsi11g01191 Lsi-Chr11:20362963 Lsi07g00807 Lsi-Chr7:8993203 4.78E-07 dispersed
       

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
Vvi3g135 . . . . . Bpe12g00116 . . Cmo19g00739 . . . . . Sed01g3135 . Cpe15g00585 Bhi05g01731 Tan02g0700 Cmetu01g0199 . Hepe02g0435 . . Cla02g00437 Cam02g0446 Cec02g0444 Cco02g0462 Clacu02g0448 Cmu02g0442 Cre02g0776 Cone12ag1224 Cone8ag1275 . . . . . Cme01g01275 Blo04g00561 Blo13g00516 Bda15g01039 Bda14g00610 Bpe15g00819 . Bma03g00602 . . . . . Cma19g00731 . Car19g00560 . . . . . . . . . . . . . . . . Lsi11g01191 . Chy01g00689 .
       

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
OG0001587 3 2 3 3 4 2 3 2 2 2 2 2 2 2 2 3 2 4 4 2 2 2 2 0 1 3 2 3 2 2 70
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
26193 PF00313 CSD 1.40E-24 CL0021 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi11g01191 Lsi_Chr11 FPKM 14.68142 16.10099 9.915452 10.433714 12.818411 13.634609 11.96173 8.199538 7.238592 7.105521