Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa01g00558 ATGGGAAGGGTTAAGCTGAAAATAAAGAAATTGGAGAGCACTGGTAGCAGGCAAGTGACTTACTCTAAGAGAAGAAATGGGATTATGAAGAAAGCAAGGGAGCTAGCTATACTCTGCGATATTGATATCGTTCTCCTCATGTTTTCGCCAAGTGGAAAGCCGGCGCTATATGAAGGTGAACGCAGCAACATCGAGGAGGTCATTACAAAATTTGCCGAATTGACTCCACAGGAGAGGGCAAAAAGGAAAATGGAAAGCCTTGAAGTGCTGAAGAAAACATTCAAGAAGTTAGACCACGATGTTAACATAGACGATTTTGTGGGTTCAAGCTCTCAAGATTTTGAGGAATTGACCAATGAAGCTTCCTTATTGCGAGATCAGATTGGTGAAACACATAAGAGACTGAGCTATTGGAGGAATCCTGATAGTATCAACAATGTAGACCAGCTCCAGCAGATGGAAGATCTATTAAGGGAGTCCTTAAACCAGACACGTCTACACAAGGAAAATTTAAGAAGACATCAACTACTCTCACAGGACTTCACAGGCCAGTATTCGTGTGCTGGGATGTCCTTACCTTTGTTAATGGAAGAAATGCAAGGCACTCAACCCTTGTTATGGCTTGCCAACTATGGCACTCAACAGATTCCTTTACCAAATGAGCCCAGCTTTCTGCAACCAGGTGATGTTGAATGCTCATTTCCAAGCTATCCTAGTTTTTTCAACCCTGGGAAGCAAATTGAAGCTGGAATCTCTGGTCAAGTTGATAGCATGCCTCAAGGTGATGGGGCTTTAAATGAATTAAGTGGAACTTCTTGCTCAACGCTGCAACTTAGTGATCAATATCCATACCCTACATGTGATGGTTCAAACTTCCAAGATGAAAAGAGACTGAAAATGGAAATGGAGATGAACTTGCATGCAGCTTGTGTGGATACTCAACTAAATGACAGGTTGGAGCTCTCTAGATCACTATATGATGATAACCAGCACCCTTGGGCTTCTATACCAGGGCCTTGTAGCATTCCAATGTACCAAAGCAATGAATATCACCATCAGCCAAATTGA 1068 42.32 MGRVKLKIKKLESTGSRQVTYSKRRNGIMKKARELAILCDIDIVLLMFSPSGKPALYEGERSNIEEVITKFAELTPQERAKRKMESLEVLKKTFKKLDHDVNIDDFVGSSSQDFEELTNEASLLRDQIGETHKRLSYWRNPDSINNVDQLQQMEDLLRESLNQTRLHKENLRRHQLLSQDFTGQYSCAGMSLPLLMEEMQGTQPLLWLANYGTQQIPLPNEPSFLQPGDVECSFPSYPSFFNPGKQIEAGISGQVDSMPQGDGALNELSGTSCSTLQLSDQYPYPTCDGSNFQDEKRLKMEMEMNLHAACVDTQLNDRLELSRSLYDDNQHPWASIPGPCSIPMYQSNEYHHQPN* 356
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 3621937 3626203 + CsaV3_1G005580.1 Csa01g00558 515055

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa01g00558 355 PANTHER AGAMOUS-LIKE MADS-BOX PROTEIN AGL65 1 354 - -
Csa01g00558 355 PRINTS MADS domain signature 23 38 IPR002100 GO:0003677|GO:0046983
Csa01g00558 355 PRINTS MADS domain signature 38 59 IPR002100 GO:0003677|GO:0046983
Csa01g00558 355 PRINTS MADS domain signature 3 23 IPR002100 GO:0003677|GO:0046983
Csa01g00558 355 ProSiteProfiles MADS-box domain profile. 1 61 IPR002100 GO:0003677|GO:0046983
Csa01g00558 355 PANTHER SERUM RESPONSE FACTOR HOMOLOG 1 354 - -
Csa01g00558 355 Pfam SRF-type transcription factor (DNA-binding and dimerisation domain) 11 54 IPR002100 GO:0003677|GO:0046983
Csa01g00558 355 SUPERFAMILY SRF-like 2 95 IPR036879 GO:0003677|GO:0046983
Csa01g00558 355 SMART madsneu2 1 60 IPR002100 GO:0003677|GO:0046983
Csa01g00558 355 Gene3D - 14 96 IPR036879 GO:0003677|GO:0046983
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa01g00558 - - - csv:101220182 717.227
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa01g00558 Csa-Chr1:3621937 Csa04g02049 Csa-Chr4:20750323 9.27E-27 dispersed
Csa01g00558 Csa-Chr1:3621937 Csa05g02467 Csa-Chr5:26463781 2.18E-108 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
Vvi17g565 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lsi02g00080 Csa01g00558 Chy12g01534 Cme12g01984 . . . . . . . . Sed01g2340 . . . . Car13g00970 . . . Bhi08g01149 Tan05g2432 Cmetu12g1892 . Hepe07g2502 . . Cla04g01191 . . Cco01g1805 Clacu04g1277 . . . . . .
       

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
OG0012582 0 5 0 0 0 1 2 1 1 1 1 1 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 0 29
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
30656 PF00319 SRF-TF 1.20E-19 No_clan Csa TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa01g00558 Csa_Chr01 FPKM 110.440361 121.764908 64.810638 64.879044 13.219013 12.511618 13.376646 73.889709 70.733055 75.429085