Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cmo12g00541 ATGGCATTTGCAGGCACAACCCAGAAGTGTATGGCTTGTGAAAAGACCGTCTATCTCGTCGACAAGTTGACCGCTGATAACCGTGTCTACCACAAAGCCTGCTTCAGATGTCACCATTGCAAAGGAACTCTCAAGCTCAGCAACTACAATTCCTTTGAAGGGGTCCTTTACTGCAGGCCACACTTTGATCAGATCTTTAAGAGGACTGGTAGTCTTGACAAAAGCTTTGAAGGGACACCCAAGATCGTAAAACCAGAGAAACCGATCGATGGCGAGAAACGGGCAGCGAGCAAGGTTGCTAACATGTTCGGTGGAACAAGAGATAAATGTCTTGGCTGTAATAACACCGTCTTTCCAATAGAAAAGGTTACTGTGAATGGAATTCCATACCATAAAACTTGCTTCAAATGCTGTCATGGAGGATGCACGATCAGTCCTTCAAACTACATCGCTCACGAGGGGCGACTTTACTGCAAGCACCACCATATCCAACTGATCAAGGAGAAAGGAAACTTGAGTCAGCTTGAAGGAGACCATGAAAAGATAACAAGGGAGAAAATCAATGGTGGAGAGGTGGCTTCTGAGGCCTGA 591 45.85 MAFAGTTQKCMACEKTVYLVDKLTADNRVYHKACFRCHHCKGTLKLSNYNSFEGVLYCRPHFDQIFKRTGSLDKSFEGTPKIVKPEKPIDGEKRAASKVANMFGGTRDKCLGCNNTVFPIEKVTVNGIPYHKTCFKCCHGGCTISPSNYIAHEGRLYCKHHHIQLIKEKGNLSQLEGDHEKITREKINGGEVASEA 196
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
12 3299159 3300630 + CmoCh12G005410.1 Cmo12g00541 393229

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cmo12g00541 196 PANTHER OS06G0237300 PROTEIN 1 185 IPR045268 GO:0051015
Cmo12g00541 196 Pfam LIM domain 10 63 IPR001781 -
Cmo12g00541 196 Pfam LIM domain 110 164 IPR001781 -
Cmo12g00541 196 SMART lim_4 109 161 IPR001781 -
Cmo12g00541 196 SMART lim_4 9 61 IPR001781 -
Cmo12g00541 196 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 102 135 - -
Cmo12g00541 196 ProSiteProfiles LIM domain profile. 108 168 IPR001781 -
Cmo12g00541 196 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 3 35 - -
Cmo12g00541 196 PANTHER GATA TYPE ZINC FINGER TRANSCRIPTION FACTOR FAMILY PROTEIN 1 185 - -
Cmo12g00541 196 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 36 76 - -
Cmo12g00541 196 ProSitePatterns LIM zinc-binding domain signature. 10 44 IPR001781 -
Cmo12g00541 196 CDD LIM2_SF3 110 170 - -
Cmo12g00541 196 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 136 175 - -
Cmo12g00541 196 CDD LIM1_SF3 6 68 - -
Cmo12g00541 196 Gene3D Cysteine Rich Protein 105 174 - -
Cmo12g00541 196 Gene3D Cysteine Rich Protein 4 74 - -
Cmo12g00541 196 ProSiteProfiles LIM domain profile. 8 68 IPR001781 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cmo12g00541 K09377 CSRP; cysteine and glycine-rich protein - csv:101210188 389.808
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cmo09g00287 Cmo12g00541 CCT
Cmo01g01840 Cmo12g00541 CCT
Cmo01g01840 Cmo12g00541 ECH
Cmo09g00287 Cmo12g00541 ECH
Cmo05g00138 Cmo12g00541 CST
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cmo11g00114 Cmo-Chr11:601593 Cmo12g00541 Cmo-Chr12:3299159 1.09E-13 dispersed
Cmo12g00541 Cmo-Chr12:3299159 Cmo04g01206 Cmo-Chr4:6155418 1.07E-74 dispersed
Cmo01g01840 Cmo-Chr1:13432555 Cmo12g00541 Cmo-Chr12:3299159 4.99E-112 wgd
Cmo11g01422 Cmo-Chr11:10025478 Cmo12g00541 Cmo-Chr12:3299159 1.62E-109 wgd
Cmo12g00541 Cmo-Chr12:3299159 Cmo19g00561 Cmo-Chr19:6430332 3.35E-15 wgd
Cmo12g00541 Cmo-Chr12:3299159 Cmo05g00138 Cmo-Chr5:601874 1.43E-14 wgd
Cmo12g00541 Cmo-Chr12:3299159 Cmo09g00287 Cmo-Chr9:1269812 1.89E-117 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
10738 PF00412 LIM 2.10E-10 CL0167 Cmo TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cmo12g00541 Cmo_Chr12 FPKM 103.087128 112.917221 1928.609375 1930.213257 19.571442 31.331118 22.071953 2.821228 2.55084 2.43477