Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma11g00112 ATGGCGTTTTTGCTCAACAAAACCACTCTTGCCTCTCATTTCCGATCTCAATCCCAGGCGGATCCTTCAACACTCTCGCGCCGTGGATTCCACGTCGAGCCAGGAACTCGTGAAAAAGCTTTATTAGCTGAGGACCCTTCTCTAAGGCGGTTCAGATCACACAAGAAAGGTGTCTCTAGAATCAAGAAAATTGGAGATGTTCTGACCATTGTGGTTGTTGCAGGGCAAAGGAGAGCTCCTCTGCTTCTTCTTTCCCTTCCTTCTTCTCAGCCTCATAGTTCAGTTCAGCTCAGCTCAAATTCTTCTTTGAAAATGGCGTTTTTAGGGACAACCCAGAAGTGCAAGGCATGTGACAAGACTGTTTACTTGGTTGATCAGCTCACTGCAGATAGCAAAGTCTATCACAAGGCTTGTTTCAGGTGCCACCATTGCAACAACACTCTAAGGTTGTTCAATTACTCTTCCTTTGAAGGTGTTTTGTATTGCAAACCTCACTTTGATCAGTTGTTCAAGATGACTGGAAGTTTGGAAAAAAGTTTTGAAGGAACTCCAAGAACTGTGAGGAAACACAGATCTACTAATCAGGGCCAATCCAATAGCAAATTGTCAAGCTTTTTTGCTGGAACTCAAGACAAATGTGTTGCTTGCAAGAAAACTGTTTATCCAATTGAGAAGGTGGCAGTAGATAGTAAATCATACCACAGAGGTTGCTTCAGGTGCTCACATGGAGGATGTGTGATTAGCCCATCAAACTACATAGCACATGAACATCGACTATACTGTAGGCATCATCACAACCAGCTCTTCAAACACAAGGGCAATTTCACCCAACTTGACAACCATCATGAACATATTAAAGGGACTCACTAA 870 43.1 MAFLLNKTTLASHFRSQSQADPSTLSRRGFHVEPGTREKALLAEDPSLRRFRSHKKGVSRIKKIGDVLTIVVVAGQRRAPLLLLSLPSSQPHSSVQLSSNSSLKMAFLGTTQKCKACDKTVYLVDQLTADSKVYHKACFRCHHCNNTLRLFNYSSFEGVLYCKPHFDQLFKMTGSLEKSFEGTPRTVRKHRSTNQGQSNSKLSSFFAGTQDKCVACKKTVYPIEKVAVDSKSYHRGCFRCSHGGCVISPSNYIAHEHRLYCRHHHNQLFKHKGNFTQLDNHHEHIKGTH 289
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
11 603981 610291 - CmaCh11G001120.1 Cma11g00112 302621

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma11g00112 289 PANTHER GATA TYPE ZINC FINGER TRANSCRIPTION FACTOR FAMILY PROTEIN 106 283 - -
Cma11g00112 289 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 140 180 - -
Cma11g00112 289 SMART lim_4 212 264 IPR001781 -
Cma11g00112 289 SMART lim_4 113 165 IPR001781 -
Cma11g00112 289 CDD LIM1_SF3 110 171 - -
Cma11g00112 289 ProSitePatterns LIM zinc-binding domain signature. 114 148 IPR001781 -
Cma11g00112 289 ProSiteProfiles LIM domain profile. 112 172 IPR001781 -
Cma11g00112 289 ProSiteProfiles LIM domain profile. 211 271 IPR001781 -
Cma11g00112 289 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 106 139 - -
Cma11g00112 289 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 239 277 - -
Cma11g00112 289 Pfam LIM domain 114 168 IPR001781 -
Cma11g00112 289 Pfam LIM domain 213 268 IPR001781 -
Cma11g00112 289 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 205 238 - -
Cma11g00112 289 Gene3D Cysteine Rich Protein 109 178 - -
Cma11g00112 289 Gene3D Cysteine Rich Protein 207 277 - -
Cma11g00112 289 CDD LIM2_SF3 213 273 - -
Cma11g00112 289 PANTHER OS06G0237300 PROTEIN 106 283 IPR045268 GO:0051015
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma11g00112 K09377 CSRP; cysteine and glycine-rich protein - csv:101212133 359.377
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma11g00112 Cma-Chr11:603981 Cma11g01697 Cma-Chr11:11202373 4.52E-91 dispersed
Cma10g00145 Cma-Chr10:656570 Cma11g00112 Cma-Chr11:603981 5.89E-172 wgd
       

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
Vvi17g697 . . Bda06g00580 . . . . . . . . Cma11g00112 Car10g00137 Car11g00111 Sed08g0156 . Cpe04g01539 Bhi02g00403 Tan09g2209 . . Hepe09g0176 . . . . . . . . . . . Cone13ag0124 Cone19ag0127 . . . . . Blo15g00280 . . Bpe07g00821 . . . . Cmo10g00153 Cmo11g00115 . . . . . Cpe18g00828 . . . . . . . . . . . . . . Lsi06g01527 Csa01g00175 . Cme02g01944
       

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
OG0000380 2 4 3 3 2 4 8 4 4 3 3 4 8 4 4 7 4 3 8 4 4 4 4 4 4 3 4 8 4 3 128
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
35775 PF00412 LIM 1.00E-09 CL0167 Cma TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma11g00112 Cma_Chr11 FPKM 25.930218 26.869591 19.399706 18.391096 11.047555 12.144977 10.80979 15.368246 14.692584 14.970056