Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00546 ATGGATCTTCTTCAGTCATACACAGATCAAAACGACGAAGACGGAAACCCTAAACAGCTTTCATCTTCACCAGAAGCCTCTCCGCCTCGGCTTCTCCCCTCCAAAACCTCGGCGCCTAAGGTTGATGATACAATGTTAGCTCTCACGGTGGCCAACGCCAACCAGACCCTCTCGAAGCCGATAGACCCAACTCAACATCTCGTTGCCTTCAACCCCACTTACGACCAACTCTGGGCGCCAATTTACGGTCCATCTCATCCCTATGCCAAGGATGGCATTGCACAGGGCATGCGAAACCACAAGCTAGGCTTCGTGGAGAATGCGTCCATTGAACCATTTGTCTTCGATGAGCAGTACAACACTTTCCATAAATATGGATATGCTGCTGACCCATCAGCTTCTGCAGGAAACAATTACATTGGGGACATGGAGGCTTTGCAGAAGAATGATGCCATATCCGTGTATAACATTCCACAGCACGAGCAAAAGAAGCGGAAGATTGAGAAAAAGAAAGAAATGAGTGAGAATGAAGATGTGGAAGAGGACTTGAACCCGGCTGAAGTTGATAATCCAGCCACTGATGTGTGGTTGATGAAGAATAGGAAGAGTCCATGGTCTGGTAAGAAGGAAGGTCTGCAAACTGAGCTAACTGAGGAGCAAAAGAAATATGCAGAAGAGTATGCAAAGAAGAAAGGTGAAGAGAAAGGTGGTGAGAAGGGAGAAGTTACAGCGGATAAGAGTACTTTTCATGGTAAAGAGGAGAGGGACTACCAGGGTAGATCTTGGATTGCACCCCCGAAGGATGCCAAGGCCACAAATGATCATTGTTATATACCAAAAAGATTGGTGCATACATGGAGCGGGCACACAAAGGGTGTATCTGCTATTAGATTCTTCCCTAAACATGGCCATTTGATTCTTTCAGCTGGTATGGATACCAAGGTGAAGATATGGGATGTGTTCAATTCTGGTAAATGTATGAGAACCTACATGGGTCACTCTCAGGCGGTTCGGGATATTTCATTTTGTAATGATGGATCTAAGTTTTTGACTGCCGGATATGATAAAAAGATTAAGTATTGGGATACAGAAACAGGGCAAGTGATATCAACCTTCTCCACCGGGAAAATTCCTTATGTAGTTAAGCTTAATCCTGACGATGATAAGCAGAATATCCTGCTGGCAGGGATGAGTGATAAGAAAATCGTTCAGTGGGATATGAACACAGGACAGATTACACAAGAGTATGATCAACATTTAGGAGCAGTGAATACCATTACATTTGTAGACAATAATAGGAGGTTTGTTACATCAAGTGATGACAAGTCTCTCCGTGTTTGGGAATTTGGAATTCCTGTTGTTATTAAGTATATTAGTGAGCCTCACATGCACTCCATGCCCTCCATTTCTGTACACCCCAATACAAATTGGCTCGCAGCACAGAGTTTAGACAATCAAATTCTTATTTATAGCACTAGGGAGAGATTTCAGCTAAACAAGAAAAAGAGGTTTGCTGGGCACATTGTGGCAGGATATGCTTGTCAGGTTAATTTTTCTCCAGATGGACGTTTTGTTATGTCGGGTGATGGTGAAGGTAAATGCTGGTTTTGGGACTGGAAAACCTGCAAGGTATTCAGAACTCTAAAGTGTCACGAAGGTGTATGCATTGGGTGTGAGTGGCATCCATTGGAACAAAGTAAAGTAGCAACCTGCGGCTGGGATGGACTGATAAAGTATTGTGAGGGTCAAATATTGGGTTTTGTGCTGATCTGTGGTGTTCTTATGACTCTTTACTGCGACACCAAAACGGCTGGCTTAAAGATTTCAGGGACTAGATTTGAAGCTGAGATCATCTGTGGAAGCCGTGTGCCTGGGATATTTGGCCTCAACTTTGAGAAGGAAAATTCTGGGCGAAAATCTGCCCTTAAAAGATGA 1935 43.82 MDLLQSYTDQNDEDGNPKQLSSSPEASPPRLLPSKTSAPKVDDTMLALTVANANQTLSKPIDPTQHLVAFNPTYDQLWAPIYGPSHPYAKDGIAQGMRNHKLGFVENASIEPFVFDEQYNTFHKYGYAADPSASAGNNYIGDMEALQKNDAISVYNIPQHEQKKRKIEKKKEMSENEDVEEDLNPAEVDNPATDVWLMKNRKSPWSGKKEGLQTELTEEQKKYAEEYAKKKGEEKGGEKGEVTADKSTFHGKEERDYQGRSWIAPPKDAKATNDHCYIPKRLVHTWSGHTKGVSAIRFFPKHGHLILSAGMDTKVKIWDVFNSGKCMRTYMGHSQAVRDISFCNDGSKFLTAGYDKKIKYWDTETGQVISTFSTGKIPYVVKLNPDDDKQNILLAGMSDKKIVQWDMNTGQITQEYDQHLGAVNTITFVDNNRRFVTSSDDKSLRVWEFGIPVVIKYISEPHMHSMPSISVHPNTNWLAAQSLDNQILIYSTRERFQLNKKKRFAGHIVAGYACQVNFSPDGRFVMSGDGEGKCWFWDWKTCKVFRTLKCHEGVCIGCEWHPLEQSKVATCGWDGLIKYCEGQILGFVLICGVLMTLYCDTKTAGLKISGTRFEAEIICGSRVPGIFGLNFEKENSGRKSALKR 644
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 5019179 5022007 - Lsi04G005460.1 Lsi04g00546 660595

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00546 644 ProSiteProfiles Trp-Asp (WD) repeats circular profile. 286 320 - -
Lsi04g00546 644 MobiDBLite consensus disorder prediction 1 30 - -
Lsi04g00546 644 CDD WD40 282 578 - -
Lsi04g00546 644 ProSiteProfiles Trp-Asp (WD) repeats profile. 330 371 IPR001680 GO:0005515
Lsi04g00546 644 PRINTS G protein beta WD-40 repeat signature 349 363 IPR020472 -
Lsi04g00546 644 PRINTS G protein beta WD-40 repeat signature 306 320 IPR020472 -
Lsi04g00546 644 PRINTS G protein beta WD-40 repeat signature 435 449 IPR020472 -
Lsi04g00546 644 ProSiteProfiles Trp-Asp (WD) repeats profile. 416 448 IPR001680 GO:0005515
Lsi04g00546 644 MobiDBLite consensus disorder prediction 1 38 - -
Lsi04g00546 644 SMART WD40_4 409 448 IPR001680 GO:0005515
Lsi04g00546 644 SMART WD40_4 497 538 IPR001680 GO:0005515
Lsi04g00546 644 SMART WD40_4 323 362 IPR001680 GO:0005515
Lsi04g00546 644 SMART WD40_4 365 406 IPR001680 GO:0005515
Lsi04g00546 644 SMART WD40_4 541 581 IPR001680 GO:0005515
Lsi04g00546 644 SMART WD40_4 452 491 IPR001680 GO:0005515
Lsi04g00546 644 SMART WD40_4 279 319 IPR001680 GO:0005515
Lsi04g00546 644 PANTHER PRE-MRNA-PROCESSING FACTOR 17 45 580 IPR032847 GO:0000398|GO:0071013
Lsi04g00546 644 MobiDBLite consensus disorder prediction 229 259 - -
Lsi04g00546 644 MobiDBLite consensus disorder prediction 160 177 - -
Lsi04g00546 644 SUPERFAMILY WD40 repeat-like 277 578 IPR036322 GO:0005515
Lsi04g00546 644 ProSiteProfiles Trp-Asp (WD) repeats circular profile. 330 367 - -
Lsi04g00546 644 MobiDBLite consensus disorder prediction 160 185 - -
Lsi04g00546 644 Coils Coil 209 229 - -
Lsi04g00546 644 ProSiteProfiles Trp-Asp (WD) repeats circular profile. 416 448 - -
Lsi04g00546 644 Gene3D - 266 581 IPR015943 GO:0005515
Lsi04g00546 644 Coils Coil 157 177 - -
Lsi04g00546 644 Pfam WD domain, G-beta repeat 281 319 IPR001680 GO:0005515
Lsi04g00546 644 Pfam WD domain, G-beta repeat 410 447 IPR001680 GO:0005515
Lsi04g00546 644 Pfam WD domain, G-beta repeat 503 538 IPR001680 GO:0005515
Lsi04g00546 644 Pfam WD domain, G-beta repeat 324 362 IPR001680 GO:0005515
Lsi04g00546 644 ProSitePatterns Trp-Asp (WD) repeats signature. 306 320 IPR019775 -
Lsi04g00546 644 ProSiteProfiles Trp-Asp (WD) repeats profile. 286 320 IPR001680 GO:0005515
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00546 K12816 CDC40, PRP17; pre-mRNA-processing factor 17 - csv:101214854 1163.29
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g00546 Lsi-Chr4:5019179 Lsi01g00842 Lsi-Chr1:6715721 4.15E-21 dispersed
Lsi04g00546 Lsi-Chr4:5019179 Lsi02g02285 Lsi-Chr2:29422484 1.86E-23 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
Vvi1g723 . . . . . Bpe10g00836 Bma14g01790 Bma15g00188 . Cmo18g00805 . . . Car18g00732 Sed06g1635 Cpe09g00502 Cpe01g01528 Bhi07g01722 Tan04g1228 Cmetu10g1166 . Hepe10g1644 . . Cla05g02538 Cam05g2728 Cec05g2758 Cco05g2799 Clacu05g2729 Cmu05g2582 Cre05g2696 . . . Cone12ag0639 Lsi04g00546 Csa05g02340 Chy10g00907 Cme10g00519 Blo06g00874 Blo11g00912 Bda07g01599 . . . . . . . . Cma04g01729 . Car04g01761 . . . . . . . . . . . . . . . . . . . . .
       

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
OG0004325 3 2 2 2 2 1 2 1 1 1 1 1 2 1 1 2 1 1 2 1 1 1 1 1 1 1 1 2 2 1 42
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00546 Lsi_Chr04 FPKM 2.041152 2.13998 1.563974 2.325237 2.566126 1.778265 6.152473 1.522268 0.873084 1.166992