Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa01g00616 ATGGAAGGCAGCTTCGAACAGACCCTTCAAGATGGACAGCTTTACAGACAAGTCAATTCTCTCATTGTCGCTCATCTTCGTGATCACAACCTCACCCAGGCTGCAAGTGCTGCTGCTTCAGCTACAATGACACCACTGAATGTTGATGTTCCACCTAAAAAGCTTATGGAGCTCGTTGCAAAGGGCCTTGCGGTGGAGAAAGATGAGACGTTAAGAGGGAGTCCTGCTTCTGCATTGTATGAATTTGGTTCATCAATGCCCACTACATTTGGATCTGCACAGCCCTCTCGTCCTTCTGCTATCGACTTCAGCACTACACAGGATACAAAAGGTTCGTCGAAGAATTTTCCAAAGCACGAGACTCGACATCTTTCTGAGCATAAGAATGTTGCCAGATGTGCAAGATTCAGTGCTGATGGGAGATTTGTTGCAACTGGAAGCGCTGATATGTCAATAAAGCTGTTTGAGGTGGCAAAGATCAAGCAGATGATGCTGCCAGATGCAAAAGATGGTCCTGTCCGACCAGTTATAAGGACATTTTATGATCACATTCAACCAATAAATGATTTAGATTTTCATCCTCAGAATACTGTTCTTGTATCTGGTGCAAAAGATCACACAATAAAGTTCTTTGACTTCTCCAAATTGACTGCAAAGAAAGCATTTCGAGTTATCCAGGATACTCATAACGTGCGATCTATATCTCTTCATCCTTCAGGAGATTATCTCTTAGCAGGAACGGATCATCAGATTCCCCACTTGTATGATGTCAATACTTTTCAGTGTTTTCTATCCGCAAATGTTCCTGAAATAGGAAATAATGGAGCAATAAATCAGATCAGGTATTCGGCAACAGGTAGTATGTATGTCACTGCTTCGAAAGACGGCGCAGTTCGTTTATGGGACGGCATTGGTGCAAAATGTATTCGGTCCATTGTTAGTGCACATGGCACAGCAGAGGCCACCAGTGCAAAATTTACAAAGGATGAAAGGTATGTTCTTTCTTGTGGAAAGGACTCGAGTGTAAAGCTATGGGACGTGGGGACAGGGAGACTAGTCAAACAATATGTTGGCGCCACTCATATTCAATTGAGGTGTCAGGCTGTATTCAATGATACTGAGGAGTTTGTGCTATCAATAGACGAACCAAGCAATGAGATTGTTATTTGGGATGCTTTGACAGCAGAGAGAGTAGCAAGGTGGCCTTCTAACCATGTCGGTGCACCTCGATGGCTCGAGCACTCACCAACAGAGTCGGCCTTCATTTCCTGCGGGACTGATAAATCGATACGTTTTTGGAAGGAAAGTCTCTAG 1314 43.84 MEGSFEQTLQDGQLYRQVNSLIVAHLRDHNLTQAASAAASATMTPLNVDVPPKKLMELVAKGLAVEKDETLRGSPASALYEFGSSMPTTFGSAQPSRPSAIDFSTTQDTKGSSKNFPKHETRHLSEHKNVARCARFSADGRFVATGSADMSIKLFEVAKIKQMMLPDAKDGPVRPVIRTFYDHIQPINDLDFHPQNTVLVSGAKDHTIKFFDFSKLTAKKAFRVIQDTHNVRSISLHPSGDYLLAGTDHQIPHLYDVNTFQCFLSANVPEIGNNGAINQIRYSATGSMYVTASKDGAVRLWDGIGAKCIRSIVSAHGTAEATSAKFTKDERYVLSCGKDSSVKLWDVGTGRLVKQYVGATHIQLRCQAVFNDTEEFVLSIDEPSNEIVIWDALTAERVARWPSNHVGAPRWLEHSPTESAFISCGTDKSIRFWKESL* 438
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 3940621 3945617 - CsaV3_1G006160.1 Csa01g00616 515113

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa01g00616 437 ProSiteProfiles Trp-Asp (WD) repeats profile. 180 221 IPR001680 GO:0005515
Csa01g00616 437 SUPERFAMILY WD40 repeat-like 116 434 IPR036322 GO:0005515
Csa01g00616 437 ProSiteProfiles Trp-Asp (WD) repeats circular profile. 270 302 - -
Csa01g00616 437 Pfam WD domain, G-beta repeat 121 155 IPR001680 GO:0005515
Csa01g00616 437 Pfam WD domain, G-beta repeat 307 346 IPR001680 GO:0005515
Csa01g00616 437 Pfam WD domain, G-beta repeat 228 251 IPR001680 GO:0005515
Csa01g00616 437 Pfam WD domain, G-beta repeat 272 302 IPR001680 GO:0005515
Csa01g00616 437 Pfam WD domain, G-beta repeat 177 212 IPR001680 GO:0005515
Csa01g00616 437 Gene3D - 104 436 IPR015943 GO:0005515
Csa01g00616 437 ProSiteProfiles Trp-Asp (WD) repeats profile. 322 355 IPR001680 GO:0005515
Csa01g00616 437 SMART WD40_4 173 212 IPR001680 GO:0005515
Csa01g00616 437 SMART WD40_4 117 156 IPR001680 GO:0005515
Csa01g00616 437 SMART WD40_4 218 256 IPR001680 GO:0005515
Csa01g00616 437 SMART WD40_4 259 302 IPR001680 GO:0005515
Csa01g00616 437 SMART WD40_4 305 346 IPR001680 GO:0005515
Csa01g00616 437 SMART WD40_4 394 434 IPR001680 GO:0005515
Csa01g00616 437 ProSitePatterns Trp-Asp (WD) repeats signature. 333 347 IPR019775 -
Csa01g00616 437 ProSiteProfiles Trp-Asp (WD) repeats circular profile. 180 214 - -
Csa01g00616 437 ProSiteProfiles Trp-Asp (WD) repeats profile. 124 165 IPR001680 GO:0005515
Csa01g00616 437 MobiDBLite consensus disorder prediction 89 124 - -
Csa01g00616 437 PRINTS G protein beta WD-40 repeat signature 199 213 IPR020472 -
Csa01g00616 437 PRINTS G protein beta WD-40 repeat signature 289 303 IPR020472 -
Csa01g00616 437 PRINTS G protein beta WD-40 repeat signature 333 347 IPR020472 -
Csa01g00616 437 CDD WD40 120 434 - -
Csa01g00616 437 MobiDBLite consensus disorder prediction 89 112 - -
Csa01g00616 437 ProSiteProfiles Trp-Asp (WD) repeats profile. 270 302 IPR001680 GO:0005515
Csa01g00616 437 PANTHER CLEAVAGE STIMULATION FACTOR SUBUNIT 1 2 436 IPR044633 GO:0005848|GO:0031124
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa01g00616 K14406 CSTF1; cleavage stimulation factor subunit 1 - csv:101206503 878.241
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa01g00616 Csa-Chr1:3940621 Csa06g03074 Csa-Chr6:26388096 1.28E-28 dispersed
Csa01g00616 Csa-Chr1:3940621 Csa07g01715 Csa-Chr7:17626903 3.13E-19 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
Vvi17g447 . . . . . . . . Cmo13g01108 . . . . . . Cpe20g00085 . . . . . . . . . . . . . . . . Cone16ag0219 . . Lsi02g00134 Csa01g00616 Chy12g01484 Cme12g01925 . . Bda11g01767 . . . . . Sed08g2132 . . Cma13g01063 . Car13g00899 . . . Bhi08g01068 Tan05g2342 Cmetu12g1898 Lac10g0178 Hepe07g2449 . . . . . . . . . . . . .
       

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
OG0009578 2 1 1 2 1 1 2 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 1 1 1 1 1 32
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa01g00616 Csa_Chr01 FPKM 28.464436 34.493965 27.561712 30.160742 27.783436 27.333389 27.377621 36.579006 38.293301 35.711342