Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cla06g01642 ATGGCGTTTTTCCTCAACAAAACCACTCTTGCCTCTCATTTCCGATCTCAATCCCAGGTGGATCCTTCGTCACTCTCGCGCCGTGGATTCCACATCGAACCAGGGACTCGTGAAAAGGCTTTATTAGCTGAGGACCCTTCTCTAAGCCGGTTTAGATCACACAAGAAAGATGTCTCTCGACTCAAAAGAATTGGAGATGTTCTGACAATTGTGGTGGTTGCAGTCATTGGATCAAGCAGTAAGGACATGTACAGATTTATGAAGATGGCTTTTTTAGGAACAACCCAAAAGTGCAAAGCTTGTGACAAGACTGTTTACTTGGTTGATCAACTCACTGCTGATAACAAAGTTTACCACAAAGCTTGTTTCAGATGCCACCATTGCAACAGCACTCTAAAGTTGTTCAATTACTCCTCCTTTGAAGGTGTATTGTATTGCAAACCTCACTTTGATCAGTTGTTCAAGATGACTGGAAGCTTAGAAAAAAGTTTTGAAGGTACTCCAAGAACCCTTAGAACAGACAGATCTACCAATCAGGTCCAATCCAACAGCAAAGTGTCAAGTTTATTTGCTGGAACTCAAGATAAATGTGTTACTTGCAAGAAAACTGTTTATCCAATTGAGAAGGTGGCAGTGGATAGTAAATCATACCACAGAGCTTGCTTCAGGTGCTCACATGGAGGATGTGTGATTAGCCCATCGAACTACATAGCGCACGAACATCGACTCTACTGTAGGCATCATCACAACCAACTCTTCAAACAGAAAGGGAATTTCAGCCAACTTGACAAGCATGAAGAGATTAAAGGAAGTGACTAA 819 42.0 MAFFLNKTTLASHFRSQSQVDPSSLSRRGFHIEPGTREKALLAEDPSLSRFRSHKKDVSRLKRIGDVLTIVVVAVIGSSSKDMYRFMKMAFLGTTQKCKACDKTVYLVDQLTADNKVYHKACFRCHHCNSTLKLFNYSSFEGVLYCKPHFDQLFKMTGSLEKSFEGTPRTLRTDRSTNQVQSNSKVSSLFAGTQDKCVTCKKTVYPIEKVAVDSKSYHRACFRCSHGGCVISPSNYIAHEHRLYCRHHHNQLFKQKGNFSQLDKHEEIKGSD 272
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 29924078 29933864 + ClCG06G016770.2 Cla06g01642 275834

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cla06g01642 272 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 189 222 - -
Cla06g01642 272 Pfam LIM domain 197 252 IPR001781 -
Cla06g01642 272 Pfam LIM domain 98 152 IPR001781 -
Cla06g01642 272 SMART lim_4 196 248 IPR001781 -
Cla06g01642 272 SMART lim_4 97 149 IPR001781 -
Cla06g01642 272 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 90 123 - -
Cla06g01642 272 CDD LIM1_SF3 94 155 - -
Cla06g01642 272 ProSiteProfiles LIM domain profile. 96 156 IPR001781 -
Cla06g01642 272 Gene3D Cysteine Rich Protein 93 162 - -
Cla06g01642 272 Gene3D Cysteine Rich Protein 191 261 - -
Cla06g01642 272 ProSiteProfiles LIM domain profile. 195 255 IPR001781 -
Cla06g01642 272 ProSitePatterns LIM zinc-binding domain signature. 98 132 IPR001781 -
Cla06g01642 272 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 223 261 - -
Cla06g01642 272 PANTHER GATA TYPE ZINC FINGER TRANSCRIPTION FACTOR FAMILY PROTEIN 90 269 - -
Cla06g01642 272 PANTHER OS06G0237300 PROTEIN 90 269 IPR045268 GO:0051015
Cla06g01642 272 CDD LIM2_SF3 197 257 - -
Cla06g01642 272 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 124 164 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cla06g01642 K09377 CSRP; cysteine and glycine-rich protein - csv:101212133 390.193
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cla02g00689 Cla-Chr2:8025267 Cla06g01642 Cla-Chr6:29924078 2.19E-83 dispersed
Cla06g01642 Cla-Chr6:29924078 Cla07g00367 Cla-Chr7:4403297 6.99E-72 dispersed
Cla06g01642 Cla-Chr6:29924078 Cla08g01627 Cla-Chr8:28852514 2.14E-89 transposed
Cla06g01642 Cla-Chr6:29924078 Cla05g02110 Cla-Chr5:32704667 5.46E-95 transposed
       

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
Vvi17g698 Blo04g00744 . . . Bpe12g00582 . . . . . Cma10g00145 . Car10g00136 Car11g00110 Sed08g0155 . Cpe04g01541 Bhi02g00404 Tan09g2210 Cmetu02g0989 . Hepe09g0177 . . Cla06g01642 Cam06g1826 Cec06g1874 Cco06g1881 Clacu06g1785 Cmu06g1726 Cre06g2545 . . . Cone19ag0128 . . . . Blo13g00045 . . Bda14g00823 . . Bma03g00797 Bma08g00180 . Cmo10g00152 . . . . . . Cpe18g00829 . . . . . . . . . . . . . . Lsi06g01528 Csa01g00174 Chy02g02557 Cme02g01945
       

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
61338 PF00412 LIM 6.50E-10 CL0167 Cla TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cla06g01642 Cla_Chr06 FPKM 56.253609 57.760868 68.762962 69.137978 74.073975 73.798706 77.822479 73.017227 75.517189 82.91008