Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa01g00546 ATGAATAGCAGAGAGCTTCACTGTCTTGCGTTATTTAGCAAATGTAAATCTCTTAGAACTGTTAAGCAAATCCAGGCTCTTATATTCAAAACATGCTTAAATTCCTATCCATTGGTCTCCGGAAAGCTTCTTCTACATTGTGCAGTCACACTTCCTGATTCTCTACACTATGCTCGACGCCTTTTCCTCGACATTCGAAACCCAGATGTGTTTATGTACAACACTCTCATCCGTGGCCTTTCCGATTCCGACACTCCCTCCAATGCCCTTCAACTGTTTGTTGAAATGCGTCGCAAATCCGTGGCTTTACCCGATAGTTTCTCTTTTGCTTTTCTACTCAAAGCCGCCGCTAATTGCAGGGCTCTGACCAATGGGTTGCAGTTGCATTGTCTAGCTGTTGGTTATGGCCTGGATTCCCATCTTTTTGTTGGGACAACGCTGATTAGCATGTATGCTGAATGTGCATGTTTGGTCTTTGCACGCAAGGTGTTCGATGAAATGATTGAACCAAATATTGTTGCTTGGAATGCCATTGTTGCTGCATGTTTTAGGTGCGAGGGCGTTAAGGATGCAGAGCAAGTGTTTCGTTGTATGCCAATTAGAAACTTGACCTCTTGGAACATCATGCTTGCAGGGTACACAAAAGCAGGTGAGCTTCAGTTAGCTAGGGAGGTGTTTATGAAAATGCCTTTGAAAGATGATGTTTCTTGGAGTACTATGATTGTTGGGTTCGCTCATAATGGCAACTTTAACGATGCTTTCGCATTTTTCAGGGAGGTAAGGCGGGAAGGGATGAGACCAAATGAGGTAAGTCTCACAGGTGTGCTTTCTGCATGTGCACAAGCTGGGGCATTCGAGTTTGGAAGAATTCTACATGGGTTTGTTGAAAAATCTGGCTTTCTGCAGATTATTTCAGTGAATAATGCACTGATTGATACCTACTCTAAATGTGGGAATTTGGATATGGCTCGTTTGGTCTTTGATAATATGCTTAGAAGGAGCGCTGTCTCTTGGACAGCCATGATTGCGGGGATGGCAATGCATGGCTACGGGGAAGAAGCAATCAGACTATTTAATGAGATGGAAGAGTCTAATATTAAGCCCGACAGTATTACCTTCATATCCATCTTGTATGCGTGTAGCCATGCTGGATTAGTTGATTTGGGATGCTCTTATTTTTCTAGGATGGTAAATACTTACGGTATTGAACCCGTAATTGAACATTATGGTTGCATGGTTGATCTTTATGGTCGAGCTGGTAAGCTGCAGCAAGCTTATGATTTTGTGTGTCAAATGCCAATTTCACCGAATGATATTGTCTGGAGGACTCTTCTTGGAGCTTGTAGCATTCATGGTAACTTATATCTGGCAGGGCAAGTAAAGAGACAACTCTCTGAACTTGACCCTGAAAATTCTGGAGATCATGTACTTTTGTCAAACATTTATGCAGTTGCAGGGAAATGGAAGGATGTTGCCGCTTTAAGAAGATCAATGACTCATCAAAGACTCAAGAAAACTCCAGGTTGGAGCATGATTGAAGTCAACAGAATTATATATAGTTTTGTTGCAGGAGAAAAGCAAAATGACATAGCAGTAGAGGCTCATCAAAAACTAAGGGAGATAATGTCGAGACTAAGGATAGAAGGAGGTTATGTTCCAGAAGTTGGAAGTGTTTTGCATGATATAGAAGTAGAAGAAAAGGAAGACTCTGTTTCACAACACAGCGAGAAACTGGCAGTAGCTTTCGGGATGGCGAAGCTGCCGAGAGGAAGAGCCATAAGAGTGGTTAAGAATTTAAGAATTTGCAGGGACTGTCACACTGTAATGAAGCTGATTTCTAAGGTCTATGAAGTAGAAATTGTGGTGAGAGATAGAAGCCGTTTCCACTCTTTCACACATGGTTCTTGTTCATGCAGAGATTACTGGTAA 1929 42.04 MNSRELHCLALFSKCKSLRTVKQIQALIFKTCLNSYPLVSGKLLLHCAVTLPDSLHYARRLFLDIRNPDVFMYNTLIRGLSDSDTPSNALQLFVEMRRKSVALPDSFSFAFLLKAAANCRALTNGLQLHCLAVGYGLDSHLFVGTTLISMYAECACLVFARKVFDEMIEPNIVAWNAIVAACFRCEGVKDAEQVFRCMPIRNLTSWNIMLAGYTKAGELQLAREVFMKMPLKDDVSWSTMIVGFAHNGNFNDAFAFFREVRREGMRPNEVSLTGVLSACAQAGAFEFGRILHGFVEKSGFLQIISVNNALIDTYSKCGNLDMARLVFDNMLRRSAVSWTAMIAGMAMHGYGEEAIRLFNEMEESNIKPDSITFISILYACSHAGLVDLGCSYFSRMVNTYGIEPVIEHYGCMVDLYGRAGKLQQAYDFVCQMPISPNDIVWRTLLGACSIHGNLYLAGQVKRQLSELDPENSGDHVLLSNIYAVAGKWKDVAALRRSMTHQRLKKTPGWSMIEVNRIIYSFVAGEKQNDIAVEAHQKLREIMSRLRIEGGYVPEVGSVLHDIEVEEKEDSVSQHSEKLAVAFGMAKLPRGRAIRVVKNLRICRDCHTVMKLISKVYEVEIVVRDRSRFHSFTHGSCSCRDYW* 643
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 3553228 3555156 + CsaV3_1G005460.1 Csa01g00546 515043

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa01g00546 642 Pfam DYW family of nucleic acid deaminases 550 642 IPR032867 GO:0008270
Csa01g00546 642 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 334 368 IPR002885 -
Csa01g00546 642 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 69 103 IPR002885 -
Csa01g00546 642 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 233 267 IPR002885 -
Csa01g00546 642 TIGRFAM PPR: pentatricopeptide repeat domain 336 370 IPR002885 -
Csa01g00546 642 TIGRFAM PPR: pentatricopeptide repeat domain 308 333 IPR002885 -
Csa01g00546 642 TIGRFAM PPR: pentatricopeptide repeat domain 235 269 IPR002885 -
Csa01g00546 642 TIGRFAM PPR: pentatricopeptide repeat domain 205 229 IPR002885 -
Csa01g00546 642 TIGRFAM PPR: pentatricopeptide repeat domain 72 102 IPR002885 -
Csa01g00546 642 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 202 232 IPR002885 -
Csa01g00546 642 PANTHER OS01G0913400 PROTEIN-RELATED 11 583 - -
Csa01g00546 642 Gene3D Tetratricopeptide repeat domain 146 295 IPR011990 GO:0005515
Csa01g00546 642 Gene3D Tetratricopeptide repeat domain 296 541 IPR011990 GO:0005515
Csa01g00546 642 Pfam PPR repeat family 232 280 IPR002885 -
Csa01g00546 642 Pfam PPR repeat family 334 380 IPR002885 -
Csa01g00546 642 Pfam PPR repeat family 68 117 IPR002885 -
Csa01g00546 642 Gene3D Tetratricopeptide repeat domain 42 138 IPR011990 GO:0005515
Csa01g00546 642 PANTHER - 11 583 - -
Csa01g00546 642 Pfam PPR repeat 173 199 IPR002885 -
Csa01g00546 642 Pfam PPR repeat 308 333 IPR002885 -
Csa01g00546 642 Pfam PPR repeat 145 169 IPR002885 -
Csa01g00546 642 Pfam PPR repeat 205 230 IPR002885 -
Csa01g00546 642 Pfam PPR repeat 408 432 IPR002885 -
Csa01g00546 642 Pfam E motif 451 513 IPR046848 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa01g00546 - - - csv:101219230 1288.86
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa01g00546 Csa-Chr1:3553228 Csa07g01302 Csa-Chr7:12978644 2.21E-180 dispersed
Csa03g02635 Csa-Chr3:24852569 Csa01g00546 Csa-Chr1:3553228 3.50E-157 dispersed
Csa01g00546 Csa-Chr1:3553228 Csa01g00108 Csa-Chr1:617649 3.69E-169 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
Vvi17g549 . . . . . . . . Cmo13g01185 . . . . . . . . . . . . . . . . . . . . . . Cone2ag0848 . . . Lsi02g00070 Csa01g00546 Chy12g01543 Cme12g01996 . . . . . . Bma03g00827 . . . . Cma13g01131 . . . . . Bhi08g01172 . . . Hepe07g2512 . . Cla04g01201 . . . . . . . . . .
       

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
OG0010028 0 6 0 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 0 0 1 1 1 1 29
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa01g00546 Csa_Chr01 FPKM 103.856407 119.010223 44.660961 42.449631 307.793793 339.340088 311.497864 18.480124 18.844189 19.03644