Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00486 ATGCTTCTACCAATCCCACCAAATGCACAGTCTATTCCAATTGAAATCAAGCGCGATACTTTCCATACCCATCAAAGTCGGCTTCTTCACTTGCTGACCGACTCTACTGATTTCTCAAAGCTCAAACAAATACATGCTCAGGTAATTCGTAACTTTTCGACCCACAAATCCTCTCTCTTTCTCTACAGCCGAATTCTCCACCTTTCGTCTTTAACTGATTTTGATTATGCCTGTCGTGTTTTTCATCAAATCGGTAACCCCAATTCGTTCATGTGGAACACTCTGATTGGAGCTTGTGCACGGAGCTTGGATCGGAAAGAGCAGGCGATTGAACTCTTTTATAGAATGTTAGAAGAAGGCTCAGTTGAACCAGATAAACATACTTTTCCTTTTCTTCTTAAAGCTTGTGCTTACGTGTTCGCTTTATCTGAAGGGAGACAGGCGCATGCCCATATTGTTAAACTTGGGTTAGATTCTGATGTTTATGTTGGCAATAGCTTGATTCATTTTTATGCTTCTTGTGGATGTTTGAGAATAGCATTGAAGGTGTTCGATAAAATGTCTCTTAGAAGTTTAGTGTCGTGGAATGTGATGATTGATGCGTATGTTCAATGTGGGCTTTTCGAGAATGCTCTCAAGCTATTTGTTGAAATGCAGAATAGTTTTGAGCCCGACGGGTATACAATGCAGAGTGTAATTAGTGCTTGTGCTGGTATTGGAGCTTTATCTTTGGGGATGTGGGCTCATGCTTATGTGTTGAGGAAGGCCAGTGGCGCTATGGCGGGTGATGTCCTGATCAACTCTTCACTGGTGGATATGTACAGCAAGTGTGGTTCTTTGAGAATGGCTCAGCAGGTCTTTGAGACAATGCCCAAACATGACCTGAATTCATGGAATTCGATGATTCTAGCACTCGCCATGCACGGACGGGGGGAGGCTGCCTTGCGGTGTTTCTCTCGGCTGGTTGAAATGGAGAAGTTTTTGCCCAACTCGGTCACCTTCGTTGGTGTTTTTAGTGCATGTAACCACAAAGGCATGGTTGCTGAAGGCCGGAAATATTTTGATATGATGGTTAATGAGTACAAGATTGAACCCCGGTTGGAGCACTATGGATGCCTTGTTGATCTTCTATGTCGCTCTGGTTTTATTGATGAAGCTTTGGAGTTAGTGACAAATATGCATATAAAACCAGATGCAGTGATTTGGAGGAGTCTTCTTGATGCTTTCTACAAGCAGAATGTTGGTGTTGAGTTGAGCGAAGAAGTGGCATTGGAGATTCTTCAATCTGAAAAAACAGCTTCCAGTGGTGTTTATGTGTTGTTGTCAAAAGTGTATGCTTCAGCACGCCAGTGGAATGACGTCGGGCTCGTAAGGAAGGCGATGGTCGATAAGGGTGTGACAAAAGAGCCTGGCTGCAGTTCGATAGAAATTGATGGTATTAGCCATGAGTTCTTTGCAGGAGACACATCTCACCCCAAGATAAAAGAGATCTACGATGTTATTGATTTGATTGAGGAAAAACTAGAGAAACATGGTTACTCACCTGACTGTTCACAAGCAACCATGGTAGATGAACCCGATAACATCAAACGACAATCACTTAAGTTGCATAGTGAGAGACTTGCCATAGCTTTTGGGTTACTAAACTTGAAACCTAGTACGCCGATGCGTATATTTAAAAATCTTAGAGTATGCAACGATTGCCACCAAGTCACCAAGTCGATTTCTCAAATCTTCAACGTAGAGATTATCATGAGAGATCGTAATAGGTTTCATCATTTTAAGAATGGAATGTGTTCCTGCATGGACTTTTGGTGA 1818 42.35 MLLPIPPNAQSIPIEIKRDTFHTHQSRLLHLLTDSTDFSKLKQIHAQVIRNFSTHKSSLFLYSRILHLSSLTDFDYACRVFHQIGNPNSFMWNTLIGACARSLDRKEQAIELFYRMLEEGSVEPDKHTFPFLLKACAYVFALSEGRQAHAHIVKLGLDSDVYVGNSLIHFYASCGCLRIALKVFDKMSLRSLVSWNVMIDAYVQCGLFENALKLFVEMQNSFEPDGYTMQSVISACAGIGALSLGMWAHAYVLRKASGAMAGDVLINSSLVDMYSKCGSLRMAQQVFETMPKHDLNSWNSMILALAMHGRGEAALRCFSRLVEMEKFLPNSVTFVGVFSACNHKGMVAEGRKYFDMMVNEYKIEPRLEHYGCLVDLLCRSGFIDEALELVTNMHIKPDAVIWRSLLDAFYKQNVGVELSEEVALEILQSEKTASSGVYVLLSKVYASARQWNDVGLVRKAMVDKGVTKEPGCSSIEIDGISHEFFAGDTSHPKIKEIYDVIDLIEEKLEKHGYSPDCSQATMVDEPDNIKRQSLKLHSERLAIAFGLLNLKPSTPMRIFKNLRVCNDCHQVTKSISQIFNVEIIMRDRNRFHHFKNGMCSCMDFW 605
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 4508101 4509918 + Lsi04G004860.1 Lsi04g00486 660535

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00486 605 SUPERFAMILY TPR-like 86 324 IPR011990 GO:0005515
Lsi04g00486 605 Pfam E motif 416 476 IPR046848 -
Lsi04g00486 605 Gene3D Tetratricopeptide repeat domain 268 482 IPR011990 GO:0005515
Lsi04g00486 605 PANTHER BNAC04G18690D PROTEIN 22 546 - -
Lsi04g00486 605 Pfam PPR repeat family 87 137 IPR002885 -
Lsi04g00486 605 Pfam PPR repeat family 192 237 IPR002885 -
Lsi04g00486 605 Gene3D Tetratricopeptide repeat domain 141 243 IPR011990 GO:0005515
Lsi04g00486 605 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 191 221 IPR002885 -
Lsi04g00486 605 TIGRFAM PPR: pentatricopeptide repeat domain 91 125 IPR002885 -
Lsi04g00486 605 TIGRFAM PPR: pentatricopeptide repeat domain 193 220 IPR002885 -
Lsi04g00486 605 TIGRFAM PPR: pentatricopeptide repeat domain 297 330 IPR002885 -
Lsi04g00486 605 Pfam PPR repeat 165 188 IPR002885 -
Lsi04g00486 605 Pfam PPR repeat 268 293 IPR002885 -
Lsi04g00486 605 Pfam PPR repeat 297 323 IPR002885 -
Lsi04g00486 605 Pfam PPR repeat 369 393 IPR002885 -
Lsi04g00486 605 Gene3D Tetratricopeptide repeat domain 23 140 IPR011990 GO:0005515
Lsi04g00486 605 Pfam DYW family of nucleic acid deaminases 512 605 IPR032867 GO:0008270
Lsi04g00486 605 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 88 123 IPR002885 -
Lsi04g00486 605 PANTHER OS01G0913400 PROTEIN-RELATED 22 546 - -
Lsi04g00486 605 Pfam E+ motif 482 501 IPR046849 -
Lsi04g00486 605 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 263 297 IPR002885 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00486 - - - cmo:103489069 1132.47
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi03g01687 Lsi-Chr3:28125838 Lsi04g00486 Lsi-Chr4:4508101 3.15E-166 dispersed
Lsi04g00486 Lsi-Chr4:4508101 Lsi08g01196 Lsi-Chr8:20533459 5.46E-161 dispersed
Lsi04g00483 Lsi-Chr4:4490379 Lsi04g00486 Lsi-Chr4:4508101 3.75E-23 proximal
       

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
Vvi1g836 . . . . . . Bma14g01744 . Cmo04g01697 . . . . . . . Cpe01g01432 Bhi07g01635 . . . . . . Cla05g02489 . . . . . . Cone13ag0987 . . . Lsi04g00486 . Chy10g00959 Cme10g00466 . Blo11g00874 . . . . . . . . . Cma04g01619 . Car04g01661 . . . . . . . . . . . . . . . . . . . . .
       

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
OG0012298 1 1 1 1 0 1 1 1 1 1 1 1 1 1 0 1 1 2 1 1 1 0 0 1 1 1 1 1 1 1 27
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00486 Lsi_Chr04 FPKM 0.0 0.0 0.0 0.0 0.0 0.0 0.0 1.265958 0.0 0.0