Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma12g00601 ATGGCATTTGCAGGCACAACCCAGAAGTGTATGGCTTGTGAAAAGACCGTCTATCTCGTCGACAAGTTGACCGCTGATAACCGTGTCTACCACAAAGCCTGCTTCAGATGTCACCATTGCAAAGGAACTCTCAAGCTCAGCAACTACAATTCCTTTGAGGGGGTCCTTTACTGCAGGCCACACTTTGATCAGATCTTTAAGAGGACTGGTAGTCTTGACAAAAGCTTTGAAGGGACACCTAAGATCGTAAAACCAGAGAAACCGATTGATGGCGAGAAACGGGCAGCGAGCAAGGTTGCTAACATGTTCGGTGGAACAAGAGATAAATGTCTTGGCTGTCATAACACCGTGTTTCCAATAGAAAAGGTTACTGTGAATGGAATTCCATACCATAAAACTTGCTTCAAATGCTGTCATGGAGGATGCACGATCAGCCCTTCAAACTACATCGCTCACGAGGGGCGACTTTACTGCAAGCACCACCATATCCAACTGATCAAGGAGAAAGGAAACTTGAGTCAGCTTGAAGGAGACCATGAAAAGATAACAAGGGAGAAAATCAATGGTGGAGAGGTGGCTTCTGAGGCCTGA 591 46.02 MAFAGTTQKCMACEKTVYLVDKLTADNRVYHKACFRCHHCKGTLKLSNYNSFEGVLYCRPHFDQIFKRTGSLDKSFEGTPKIVKPEKPIDGEKRAASKVANMFGGTRDKCLGCHNTVFPIEKVTVNGIPYHKTCFKCCHGGCTISPSNYIAHEGRLYCKHHHIQLIKEKGNLSQLEGDHEKITREKINGGEVASEA 196
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
12 3143187 3144535 + CmaCh12G006010.1 Cma12g00601 305091

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma12g00601 196 Pfam LIM domain 110 164 IPR001781 -
Cma12g00601 196 Pfam LIM domain 10 63 IPR001781 -
Cma12g00601 196 PANTHER OS06G0237300 PROTEIN 1 185 IPR045268 GO:0051015
Cma12g00601 196 Gene3D Cysteine Rich Protein 105 174 - -
Cma12g00601 196 Gene3D Cysteine Rich Protein 4 74 - -
Cma12g00601 196 ProSiteProfiles LIM domain profile. 108 168 IPR001781 -
Cma12g00601 196 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 136 175 - -
Cma12g00601 196 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 36 76 - -
Cma12g00601 196 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 3 35 - -
Cma12g00601 196 CDD LIM2_SF3 110 170 - -
Cma12g00601 196 SMART lim_4 109 161 IPR001781 -
Cma12g00601 196 SMART lim_4 9 61 IPR001781 -
Cma12g00601 196 ProSitePatterns LIM zinc-binding domain signature. 10 44 IPR001781 -
Cma12g00601 196 PANTHER GATA TYPE ZINC FINGER TRANSCRIPTION FACTOR FAMILY PROTEIN 1 185 - -
Cma12g00601 196 CDD LIM1_SF3 6 68 - -
Cma12g00601 196 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 102 135 - -
Cma12g00601 196 ProSiteProfiles LIM domain profile. 8 68 IPR001781 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma12g00601 K09377 CSRP; cysteine and glycine-rich protein - csv:101210188 389.037
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cma09g00294 Cma12g00601 CCT
Cma01g01782 Cma12g00601 CCT
Cma01g01782 Cma12g00601 ECH
Cma09g00294 Cma12g00601 ECH
Cma05g00134 Cma12g00601 CST
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma12g00601 Cma-Chr12:3143187 Cma15g00120 Cma-Chr15:559805 1.53E-74 dispersed
Cma01g01782 Cma-Chr1:11936942 Cma12g00601 Cma-Chr12:3143187 4.43E-113 wgd
Cma11g01697 Cma-Chr11:11202373 Cma12g00601 Cma-Chr12:3143187 4.37E-109 wgd
Cma12g00601 Cma-Chr12:3143187 Cma19g00547 Cma-Chr19:6261419 7.12E-108 wgd
Cma12g00601 Cma-Chr12:3143187 Cma05g00134 Cma-Chr5:589948 1.41E-134 wgd
Cma12g00601 Cma-Chr12:3143187 Cma09g00294 Cma-Chr9:1210659 2.46E-14 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
Vvi18g643 . . . . . . . . Cmo05g00138 Cmo12g00541 Cma01g01782 Cma09g00294 Car01g01390 Car12g00545 Sed05g2633 Cpe06g00204 . Bhi04g00436 Tan02g1031 Cmetu01g2030 . Hepe08g1339 . Lcy13g2137 Cla08g01627 Cam08g2131 Cec08g1716 Cco08g1838 Clacu08g1817 . Cre08g1600 . . Cone17ag0889 Cone20ag0235 Lsi04g01478 Csa04g02483 . Cme03g02108 . . . Bda01g01625 . . . . Sed01g2723 Cmo01g01840 Cmo09g00287 Cma12g00601 Cma05g00134 Car05g00115 Car09g00248 Cpe11g00115 Cpe02g00224 Bhi09g03223 Tan01g4685 Cmetu07g1130 . Hepe01g1834 Mch11g0367 . Cla05g02110 Cam05g2262 Cec05g2283 Cco05g2324 Clacu05g2259 Cmu05g2121 Cre05g2245 Lsi08g01532 Csa02g01888 Chy07g00193 .
       

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
36000 PF00412 LIM 6.90E-10 CL0167 Cma TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma12g00601 Cma_Chr12 FPKM 5.95 5.788225 5.924209 6.803724 3.910228 2.524307 3.783539 0.0 0.0 0.0