Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa04g00001 ATGAGGAAGAGCAGAGGTAGGCAAAAGGTGGAGATGGTGAAGATGCCAAATGAGAGCAACCTTCAGGTCACCTTCTCCAAGCGTCGCTCCGGCCTCTTCAAGAAAGCTAGCGAGCTCTGCACCCTCTGTGGTGCCGAGATTGCCATCATTGTCTTCTCACCTGGGAAGAAGGTCTTTTCCTTTGGCCACCCTTGCGTCGAGGCTCTCATCGAGCGCTTTGTCACACGAAACCCTCCACCCAGTTCTGGTACGCTGCAGCTTATCGAAGCTCACCGGAATGCTAATGTTCGAGAACTTAATGCTCAACTTACTCAAGTTCTCAACCAACTAGAAATGGAGCGGAAGCGTGGGGAAGAGTTGAACAAACTACGCAAGGCAAGCCAGGCACAATGTTGGTGGGAGCTTCCCATAGAAGAAATGGAAATGCATCAACTAGAACAACTTAAAGCTTCGTTGGATGAGCTAAAGAAGAATGTGACTCAACAAGCAGATCGGATTTTGATTCAGACTTCTTCTAATGCCAATCCCCCGACGCAGTTGATCTTCCCGACTCAGATTCCGACTCAAACATCAACAACAACAAATGGCCCCAACCAGCAACCCGGGCTTTTCGTCGTGGATCCTAAGAACATCATCTCCCATCTTCCCTTCAACTATGGTTCCTATGGATCAAGAGGTTTCTTTTGA 687 48.62 MRKSRGRQKVEMVKMPNESNLQVTFSKRRSGLFKKASELCTLCGAEIAIIVFSPGKKVFSFGHPCVEALIERFVTRNPPPSSGTLQLIEAHRNANVRELNAQLTQVLNQLEMERKRGEELNKLRKASQAQCWWELPIEEMEMHQLEQLKASLDELKKNVTQQADRILIQTSSNANPPTQLIFPTQIPTQTSTTTNGPNQQPGLFVVDPKNIISHLPFNYGSYGSRGFF* 229
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 28586 29606 - CsaV3_4G000010.1 Csa04g00001 525611

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa04g00001 228 PRINTS MADS domain signature 7 27 IPR002100 GO:0003677|GO:0046983
Csa04g00001 228 PRINTS MADS domain signature 27 42 IPR002100 GO:0003677|GO:0046983
Csa04g00001 228 PRINTS MADS domain signature 42 63 IPR002100 GO:0003677|GO:0046983
Csa04g00001 228 CDD MADS_MEF2_like 6 73 IPR033896 GO:0000977|GO:0045944
Csa04g00001 228 SMART madsneu2 5 64 IPR002100 GO:0003677|GO:0046983
Csa04g00001 228 Gene3D - 83 179 - -
Csa04g00001 228 SUPERFAMILY SRF-like 6 78 IPR036879 GO:0003677|GO:0046983
Csa04g00001 228 PANTHER MADS BOX PROTEIN 5 179 - -
Csa04g00001 228 Coils Coil 138 165 - -
Csa04g00001 228 ProSiteProfiles MADS-box domain profile. 5 65 IPR002100 GO:0003677|GO:0046983
Csa04g00001 228 PANTHER AGAMOUS-LIKE MADS-BOX PROTEIN AGL62 5 179 - -
Csa04g00001 228 Gene3D - 17 81 IPR036879 GO:0003677|GO:0046983
Csa04g00001 228 Coils Coil 93 120 - -
Csa04g00001 228 Pfam SRF-type transcription factor (DNA-binding and dimerisation domain) 16 61 IPR002100 GO:0003677|GO:0046983
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa04g00001 - - - csv:101221957 435.261
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa03g04235 Csa-Chr3:37091970 Csa04g00001 Csa-Chr4:28586 4.67E-38 dispersed
Csa04g00001 Csa-Chr4:28586 Csa06g03773 Csa-Chr6:30007518 3.20E-34 dispersed
Csa04g00001 Csa-Chr4:28586 Csa01g02249 Csa-Chr1:19607563 3.60E-35 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
OG0003994 1 1 1 1 2 1 1 1 1 1 1 1 1 1 1 1 1 4 1 1 1 1 1 1 1 1 2 2 1 7 42
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
31455 PF00319 SRF-TF 3.80E-24 No_clan Csa TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa04g00001 Csa_Chr04 FPKM 0.635739 0.0 1.919394 0.725085 0.913701 2.861396 3.11361 0.961583 1.390433 0.761765