Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g01777 ATGGCTTTGATCAGATCGAAGCCTAATCTTCCACTCTTTCTATCATATCTTTCTCAGCGTATACAGAATCACCGTTCTTTCTCATCCTCCCTTTCAATTTCAGAATCTCGCCTTCAAGACGAGCCCGCGAGCGACTGTCCTCAAAATGCCACAAATCCTGTTCTCTCGCCGGAGGAAATCCAGGCTGCCGACAAATTCCACGCCCTAATCAAGGAATACTATCGAAGAAATCCCAATCCCGATCCCACTCCACCATGCCCTAATTTCACTATTTCCGCTCTTTCCAACGACCTATCCCAAATCTCAGCCCTCCATTCCGTCTCTCCAGCCGTCGTTCGTTACGTCATCGAGAAATCTGGTGGTGTCCGTCATGGCATCCCTTTTCTTCAAGCCCTCGCGTTCTTCAACTGGGCGACGGCGGGAGAGGGTTTCGAGCATTCTGCACAGCCATACAACGAGATGATTGACCTAGCCGGTAAGGTAAAACAATTCGGATTAGCGTGGTATTTGATTGATTTGATGAAAGCTAGAAATGTAGAAATTACTGTTGAAACTTTCTCAATTCTTGTGCGGCGGTATGTGAGGGCTGGATTGGCGGCGGAGGCGGTTCATGCGTTTAATCGCATGGAGGACTATGGCTGCAATCCTGACAAGATTGCTTTCTCCATTGTTATCAGCATTCTGTGCAAGAAGAGAAGGGCAATTGAAGCCCAGTCATTTTTTGATAGTCTAAAACAAAAATTCGAACCTGATGTTGTTGTGTACACTAGCTTAGTTCATGGGTGGTGTCGAGCAGGTGATATCTCAGAGGCTGAAAGAGTATTTAAAGAGATGAAGATGGCAGGGATTAGCCCTAATGTTTATACTTATAGCATTGTGATTGATGCATTGTGTAGGTCTGGTCAAATTACTCGTGCCCATGATGTTTTCTCTGAGATGATTGATTCTGGTTGCAATCCCAACTCAGTTACATTTAACAATCTTATTAGAGTTCATGTGAAAGCTGGTAGAACAGAGAAGGTGTTGCAAGTGTATAACCAAATGAAGAGATTGGGTTGTTCTCCTGACATAGTTACTTATAATTTCCTCATAGAGACTCATTGCAGGGACGACAATCTTGGAGAGGCTATAAAGATCCTCAACTCAATGTCTAAGAAAGGCTGCACACCGAATGCATCGACGTTCAACCCTATATTTAGATGTATCGCAAAGTCGCAAGATGTAAACGGTGCTCATCGGATGTTTGCTAAGATGAAGGATGTAGGTTGTAAGCCAAATACAGTGACATACAATATCTTGATGCGAATGTTTGCGGAGTCAAAATCTGCTGATATGATTTTCAAGTTGAAGAAGGAGATGGACGAGGAAGAAGTGGAGCCTAACGTGAATACATATCGAGAATTGATATCGTTATATTGCGGGATGGGGCATTGGAACAATGCATACAAGTTCTTCAGGGAAATGATTGAGGAGAAATGCTTAAAACCCAGCATGCCTCTTTATGAGATGGTTTTGCAACAACTAAGAAAGGCAGGACAGTTGAAGAAGCATGAGGAATTGGTTGATAAGATGGTTGAGAGAGGATTCGTGTCGCGGCCCCTGTAG 1605 43.8 MALIRSKPNLPLFLSYLSQRIQNHRSFSSSLSISESRLQDEPASDCPQNATNPVLSPEEIQAADKFHALIKEYYRRNPNPDPTPPCPNFTISALSNDLSQISALHSVSPAVVRYVIEKSGGVRHGIPFLQALAFFNWATAGEGFEHSAQPYNEMIDLAGKVKQFGLAWYLIDLMKARNVEITVETFSILVRRYVRAGLAAEAVHAFNRMEDYGCNPDKIAFSIVISILCKKRRAIEAQSFFDSLKQKFEPDVVVYTSLVHGWCRAGDISEAERVFKEMKMAGISPNVYTYSIVIDALCRSGQITRAHDVFSEMIDSGCNPNSVTFNNLIRVHVKAGRTEKVLQVYNQMKRLGCSPDIVTYNFLIETHCRDDNLGEAIKILNSMSKKGCTPNASTFNPIFRCIAKSQDVNGAHRMFAKMKDVGCKPNTVTYNILMRMFAESKSADMIFKLKKEMDEEEVEPNVNTYRELISLYCGMGHWNNAYKFFREMIEEKCLKPSMPLYEMVLQQLRKAGQLKKHEELVDKMVERGFVSRPL 534
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 24980393 24981997 + Lsi04G017760.1 Lsi04g01777 661826

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g01777 534 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 461 495 IPR002885 -
Lsi04g01777 534 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 426 460 IPR002885 -
Lsi04g01777 534 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 356 390 IPR002885 -
Lsi04g01777 534 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 286 320 IPR002885 -
Lsi04g01777 534 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 321 355 IPR002885 -
Lsi04g01777 534 PANTHER PENTATRICOPEPTIDE REPEAT-CONTAINING PROTEIN 13 533 - -
Lsi04g01777 534 TIGRFAM PPR: pentatricopeptide repeat domain 288 321 IPR002885 -
Lsi04g01777 534 TIGRFAM PPR: pentatricopeptide repeat domain 185 217 IPR002885 -
Lsi04g01777 534 TIGRFAM PPR: pentatricopeptide repeat domain 151 182 IPR002885 -
Lsi04g01777 534 TIGRFAM PPR: pentatricopeptide repeat domain 394 427 IPR002885 -
Lsi04g01777 534 TIGRFAM PPR: pentatricopeptide repeat domain 253 287 IPR002885 -
Lsi04g01777 534 TIGRFAM PPR: pentatricopeptide repeat domain 428 462 IPR002885 -
Lsi04g01777 534 TIGRFAM PPR: pentatricopeptide repeat domain 464 494 IPR002885 -
Lsi04g01777 534 TIGRFAM PPR: pentatricopeptide repeat domain 358 392 IPR002885 -
Lsi04g01777 534 TIGRFAM PPR: pentatricopeptide repeat domain 323 357 IPR002885 -
Lsi04g01777 534 Pfam Pentatricopeptide repeat domain 448 505 IPR002885 -
Lsi04g01777 534 Pfam Pentatricopeptide repeat domain 171 228 IPR002885 -
Lsi04g01777 534 Pfam Pentatricopeptide repeat domain 378 437 IPR002885 -
Lsi04g01777 534 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 182 216 IPR002885 -
Lsi04g01777 534 Gene3D Tetratricopeptide repeat domain 451 528 IPR011990 GO:0005515
Lsi04g01777 534 Pfam PPR repeat family 250 299 IPR002885 -
Lsi04g01777 534 Pfam PPR repeat family 320 369 IPR002885 -
Lsi04g01777 534 PANTHER CHLOROPLAST RNA PROCESSING 1-LIKE PROTEIN 13 533 - -
Lsi04g01777 534 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 391 425 IPR002885 -
Lsi04g01777 534 Gene3D Tetratricopeptide repeat domain 334 450 IPR011990 GO:0005515
Lsi04g01777 534 Gene3D Tetratricopeptide repeat domain 122 233 IPR011990 GO:0005515
Lsi04g01777 534 Gene3D Tetratricopeptide repeat domain 234 333 IPR011990 GO:0005515
Lsi04g01777 534 SUPERFAMILY TPR-like 217 491 IPR011990 GO:0005515
Lsi04g01777 534 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 251 285 IPR002885 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g01777 - - - mcha:111011204 952.97
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi01g02003 Lsi-Chr1:26953422 Lsi04g01777 Lsi-Chr4:24980393 1.74E-13 dispersed
Lsi04g01777 Lsi-Chr4:24980393 Lsi08g00461 Lsi-Chr8:12307911 3.96E-79 dispersed
Lsi06g01450 Lsi-Chr6:25057733 Lsi04g01777 Lsi-Chr4:24980393 9.70E-06 dispersed
Lsi07g00032 Lsi-Chr7:377174 Lsi04g01777 Lsi-Chr4:24980393 7.67E-12 dispersed
Lsi04g01777 Lsi-Chr4:24980393 Lsi02g00346 Lsi-Chr2:2942389 1.06E-13 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
Vvi18g164 . Blo12g00873 . Bda03g00299 . Bpe04g00260 Bma04g00261 . . . . . Car01g01561 . . . . . . . . . . . . . . . . . . . Cone7ag1913 . . Lsi04g01777 . Chy04g00393 . . . . . . Bpe14g00404 . . . . . . . . . . . . . . . . . . Cla05g01599 Cam05g1710 Cec05g1710 Cco05g1767 Clacu05g1697 Cmu05g1586 Cre05g1705 . . . .
       

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
OG0012790 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 0 1 1 1 1 1 1 1 0 1 1 1 28
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g01777 Lsi_Chr04 FPKM 9.949797 9.628702 22.946129 23.433855 18.773718 18.524712 18.451126 41.863434 40.58345 39.532673