Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00459 ATGGAATTGCCACTGGGTTTGATTGAACAATCACTTAACAGTCGCTATTCTCTCTGGGTCCGTGAAGCTCTTAAAGATTTGTCGGATAATTTTACAATCACTGATCCCAGTATAGCGGGTCACCCAATTGTGTTCGTGAGCCCTGGATTCTTGAAGATGACTGGATATACCAAAGAAGAGGTGATTGGCAAAAATGGGAGGATGTTTCAGGGCCCAGAAACTAGTAGGAGTTCAATAATGCAAATTCGTGAGGCAGTTCGGGAAGAGAAGGGGATTCAAATTAATTTACTAAATTATCGCAAAGATGGGACACCATTCTGGGTTTTTTTCCAAATGACCCCTGTTTTCAGCGAGGAAGATGGGCGGATCATTCACTTTGTGGGTGTTCAGGTGCCGATTAGGAAGAATTCAAGGAAATCTAGATGTGGGTTTGTAAGAATTCAAGGTGTCTCATATGAGAATGAATTTAGAGCGTGCAAAAATCTTTTAAGGTCCTGTCGCCAGGAGTTGTTGTCTGATTCTATCTCGGAACTAGATTGTCTTTTGAATAGAGATTCACCACCGGATTCCGATAGTAGAGGAGTAGAGATTGAAGAACCATGTGAAGCATGTGATGATGAGAAGCAAAGGGCTGCAATTGCTATTAGTAACATCTTATCTGTCCTAACTCATCACAGTGAGGTAACGGGCAGATTGGTGTGCGAAAGGAGATGCAGCTTGCCTAGGGTGGGCATTCTTTATTCATCCTTGAATACATCTCTTAATAGAATTAAACAGAGCTTTGTATTAACCGATCCGAACTTACCAGACATGCCTATAGTTTATGTGAGTGACGAGTTTTTGAAATTAACAGGTTATACTAGATGTGAAGTTCTTGGGCGCAACTGTAGATTCTTAAGTGGAACTGACACGGATTCTTCAACCCTTTTTAAGATAAAGGAAAGCCTTCAGTCTGAACAAGCTTGCACTGTACGGATTTTAAATTACAGGAAAAATAAGAGCTCATTTTGGAATGATCTCCACATATCACCTGTTCGTAATGCTTCTGGCAAGGTAGCATATTTTGTGGGCGTCCAGATGGATGAAGATGATAAAAAGCAGGACGAACATGGGTTGAACCCTAAGATGAAGCAACTTAGCACTGTGGCTGCAGTCAGGGTGGCCGTCATTGTGAACCTAACCGAATTTCGGTTCATAAGTTTTTCTAATTCAAATGACTCTCCAGGAAGTGGCTCCATGCCTCTTGAAGGTGCAGACTGTGACTCTGAGCTTTCAGACAAATCCATGTACTGA 1293 41.84 MELPLGLIEQSLNSRYSLWVREALKDLSDNFTITDPSIAGHPIVFVSPGFLKMTGYTKEEVIGKNGRMFQGPETSRSSIMQIREAVREEKGIQINLLNYRKDGTPFWVFFQMTPVFSEEDGRIIHFVGVQVPIRKNSRKSRCGFVRIQGVSYENEFRACKNLLRSCRQELLSDSISELDCLLNRDSPPDSDSRGVEIEEPCEACDDEKQRAAIAISNILSVLTHHSEVTGRLVCERRCSLPRVGILYSSLNTSLNRIKQSFVLTDPNLPDMPIVYVSDEFLKLTGYTRCEVLGRNCRFLSGTDTDSSTLFKIKESLQSEQACTVRILNYRKNKSSFWNDLHISPVRNASGKVAYFVGVQMDEDDKKQDEHGLNPKMKQLSTVAAVRVAVIVNLTEFRFISFSNSNDSPGSGSMPLEGADCDSELSDKSMY 430
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 4356328 4360911 + Lsi04G004590.1 Lsi04g00459 660508

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00459 430 Gene3D PAS domain 19 142 - -
Lsi04g00459 430 ProSiteProfiles PAS repeat profile. 246 295 IPR000014 -
Lsi04g00459 430 ProSiteProfiles PAS repeat profile. 20 89 IPR000014 -
Lsi04g00459 430 ProSiteProfiles PAC domain profile. 320 374 IPR000700 -
Lsi04g00459 430 SUPERFAMILY PYP-like sensor domain (PAS domain) 29 130 IPR035965 -
Lsi04g00459 430 Pfam PAS domain 260 361 IPR000014 -
Lsi04g00459 430 Pfam PAS domain 41 131 IPR000014 -
Lsi04g00459 430 MobiDBLite consensus disorder prediction 405 430 - -
Lsi04g00459 430 CDD PAS 269 361 IPR000014 -
Lsi04g00459 430 CDD PAS 43 133 IPR000014 -
Lsi04g00459 430 Gene3D PAS domain 260 406 - -
Lsi04g00459 430 PANTHER PROTEIN TWIN LOV 1 130 400 - -
Lsi04g00459 430 PANTHER PROTEIN TWIN LOV 1 8 45 - -
Lsi04g00459 430 PANTHER PROTEIN TWIN LOV 1 22 136 - -
Lsi04g00459 430 SMART pas_2 248 321 IPR000014 -
Lsi04g00459 430 SMART pas_2 18 87 IPR000014 -
Lsi04g00459 430 TIGRFAM sensory_box: PAS domain S-box protein 43 128 IPR000014 -
Lsi04g00459 430 TIGRFAM sensory_box: PAS domain S-box protein 273 369 IPR000014 -
Lsi04g00459 430 SUPERFAMILY PYP-like sensor domain (PAS domain) 261 361 IPR035965 -
Lsi04g00459 430 SMART pac_2 323 365 IPR001610 -
Lsi04g00459 430 SMART pac_2 93 136 IPR001610 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00459 - - - csv:101203697 720.309
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g00459 Lsi-Chr4:4356328 Lsi10g00018 Lsi-Chr10:296026 5.24E-25 dispersed
Lsi04g00459 Lsi-Chr4:4356328 Lsi11g01320 Lsi-Chr11:21818657 9.18E-21 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
Vvi1g848 . . . . . . . . Cmo04g01708 . . . . . . . Cpe01g01442 Bhi07g01608 . . . . . . . . . . . . . Cone13ag0984 Cone19ag0974 . . Lsi04g00459 Csa05g02417 Chy10g00974 Cme10g00448 . . . . . . . . . . . Cma04g01630 . Car04g01670 . . . . . . . . . . . . . . . . . . . . .
       

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
OG0013588 0 4 0 0 0 0 2 0 0 1 0 0 1 1 1 1 0 2 1 0 1 1 1 1 1 1 1 2 1 1 25
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00459 Lsi_Chr04 FPKM 3.508897 2.726203 3.43937 4.064905 11.085197 8.813605 10.139036 7.287145 9.37832 9.286419