Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa01g01622 ATGACAAGAAAGAAGGTGAAACTTGCATACATTACAAATGATGCATCAAGAAAAGCCACATTCAAGAAAAGGAAAAAGGGTTTACTGAAGAAGCTGGCTGAGCTTACCACTCTATGTGGCATTGAGGCATGTGCTATAATCTTCAATCCCTCCAATTCACAACCTGACCTTTGGCCCTCCACTCTAGGCCTCCAAAAGGTTCTCTCTAAGTTCAAAAGCCTACCAGAGATGGAGCAATGTAAGAAGATGGTCAACCAAGAGACCTTCCTTCGTGATCGTATTGCAAAGGCTGCTGACCAACTCAAGAAGCTACAAAGGGAGAATCGTGAGAAGGAGATCACTCGAGTCATGTTTCAAAGCCTCGTTGCTGGAGCAACTCCGCCGCTAGATCTCAATGTCATCGATTTGAATGACCTTGGTTGGTTGGTTGATCAAAAGATGGCTGATATTGGTAAGAGAATGGAGTTGCTTACAGTAAATCGATCGTCACGTGTGGCGACAAATGAGCCGTCGTGGTTTATGGAGATGGTGAATCAAGGAGCTAATGATGAAGATCATATGGGATTCAATATTGGAGATGATGTGATTCAACTTCCTAGCTTTGGGGAGGATGATAATCATGATTCCTCAATTAATGTTTAG 642 42.99 MTRKKVKLAYITNDASRKATFKKRKKGLLKKLAELTTLCGIEACAIIFNPSNSQPDLWPSTLGLQKVLSKFKSLPEMEQCKKMVNQETFLRDRIAKAADQLKKLQRENREKEITRVMFQSLVAGATPPLDLNVIDLNDLGWLVDQKMADIGKRMELLTVNRSSRVATNEPSWFMEMVNQGANDEDHMGFNIGDDVIQLPSFGEDDNHDSSINV* 214
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 11853581 11854313 + CsaV3_1G017300.1 Csa01g01622 516119

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa01g01622 213 Gene3D - 13 97 IPR036879 GO:0003677|GO:0046983
Csa01g01622 213 PANTHER MADS-BOX TRANSCRIPTION FACTOR FAMILY PROTEIN 2 171 - -
Csa01g01622 213 PRINTS MADS domain signature 23 38 IPR002100 GO:0003677|GO:0046983
Csa01g01622 213 PRINTS MADS domain signature 3 23 IPR002100 GO:0003677|GO:0046983
Csa01g01622 213 PRINTS MADS domain signature 38 59 IPR002100 GO:0003677|GO:0046983
Csa01g01622 213 CDD MADS_SRF_like 2 85 IPR033897 GO:0000981|GO:0000987|GO:0045944
Csa01g01622 213 Coils Coil 87 114 - -
Csa01g01622 213 PANTHER MADS BOX PROTEIN 2 171 - -
Csa01g01622 213 SUPERFAMILY SRF-like 2 95 IPR036879 GO:0003677|GO:0046983
Csa01g01622 213 Pfam SRF-type transcription factor (DNA-binding and dimerisation domain) 10 52 IPR002100 GO:0003677|GO:0046983
Csa01g01622 213 ProSiteProfiles MADS-box domain profile. 1 52 IPR002100 GO:0003677|GO:0046983
Csa01g01622 213 SMART madsneu2 1 60 IPR002100 GO:0003677|GO:0046983
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa01g01622 - - - csv:101219796 395.201
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa01g01622 Csa-Chr1:11853581 Csa01g02690 Csa-Chr1:23890847 2.51E-83 dispersed
Csa01g01622 Csa-Chr1:11853581 Csa07g00595 Csa-Chr7:4326875 3.24E-11 transposed
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Csa01g00558 . 1 257 Type I MADS-box Gene Family AT2G03060 51.3 4.0e-64 242.3
Csa04g00001 . 4 159 Type I MADS-box Gene Family AT2G24840 55.3 1.2e-38 157.1
Csa04g00001 . 1 165 Type I MADS-box Gene Family AT5G60440 61.9 2.0e-50 196.4
Csa04g02049 . 1 174 Type I MADS-box Gene Family AT1G77950 59.4 1.5e-51 199.9
Csa01g02690 . 1 157 Type I MADS-box Gene Family AT5G48670 66.2 2.1e-53 206.5
Csa01g01622 . 1 166 Type I MADS-box Gene Family AT5G48670 56.1 3.4e-48 189.1
Csa01g00558 . 1 257 Type I MADS-box Gene Family AT2G03060 51.3 4.0e-64 242.3
Csa04g00001 . 4 159 Type I MADS-box Gene Family AT2G24840 55.3 1.2e-38 157.1
Csa04g00001 . 1 165 Type I MADS-box Gene Family AT5G60440 61.9 2.0e-50 196.4
Csa04g02049 . 1 174 Type I MADS-box Gene Family AT1G77950 59.4 1.5e-51 199.9
Csa01g02690 . 1 157 Type I MADS-box Gene Family AT5G48670 66.2 2.1e-53 206.5
Csa01g01622 . 1 166 Type I MADS-box Gene Family AT5G48670 56.1 3.4e-48 189.1
Csa01g00558 . 1 257 Type I MADS-box Gene Family AT2G03060 51.3 4.0e-64 242.3
Csa04g00001 . 1 165 Type I MADS-box Gene Family AT5G60440 61.9 2.0e-50 196.4
Csa01g02690 . 1 157 Type I MADS-box Gene Family AT5G48670 66.2 2.1e-53 206.5
Csa01g01622 . 1 166 Type I MADS-box Gene Family AT5G48670 56.1 3.4e-48 189.1
Csa04g00001 . 4 159 Type I MADS-box Gene Family AT2G24840 55.3 1.2e-38 157.1
Csa04g02049 . 1 174 Type I MADS-box Gene Family AT1G77950 59.4 1.5e-51 199.9
Csa01g00558 . 1 257 Type I MADS-box Gene Family AT2G03060 51.3 4.0e-64 242.3
Csa04g00001 . 1 165 Type I MADS-box Gene Family AT5G60440 61.9 2.0e-50 196.4
Csa01g02690 . 1 157 Type I MADS-box Gene Family AT5G48670 66.2 2.1e-53 206.5
Csa01g01622 . 1 166 Type I MADS-box Gene Family AT5G48670 56.1 3.4e-48 189.1
Csa04g00001 . 4 159 Type I MADS-box Gene Family AT2G24840 55.3 1.2e-38 157.1
Csa04g02049 . 1 174 Type I MADS-box Gene Family AT1G77950 59.4 1.5e-51 199.9
       

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
OG0001414 5 4 2 4 3 2 4 2 2 2 2 2 2 2 3 2 2 3 4 2 2 3 2 2 2 2 2 2 2 1 74
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
30731 PF00319 SRF-TF 2.10E-17 No_clan Csa TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa01g01622 Csa_Chr01 FPKM 0.0 0.0 5.835999 6.054258 75.895439 73.076019 80.874603 1.223481 1.553721 0.968152