Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g01606 ATGTATGAATTGGGCGCCATAGCTTCCAAAATAAGCAATATAAGTCAGTTAAGACAGCTTCATGGGCATTTTGTTCTCAATTCCTTACATTCTCACAATTACTGGGTTTCTGTGCTCCTCATCATCTGTACCCGTCTTCACGCTCATCCTGCCTATGCGGCTTCTATTTTTACCTCCTCGCCGTCCCCCAATGCTTCTGTTTACAGTTGTATGCTCAAATATTACTCCCGCATGGGTGCGCACAATGAGGTGGTTTCCCTCTTCAGATGTATGCAGTCTTTAGATCTCAGGCCCCAGTCATTTGTTTATATATACTTGATCAAGTTAGCTGGGAAATATGGCAATATTTTCCATGCTAATGTCATGAAGTTGGGTCATGTTGATGACCATTTCATCCGTAATGCTATCTTGGATATGTATGCAAAATATGGCCAAGTCGATCTTGCCAGGAAGTTGTTTGAGCAAATGGCTGAAAGAACTTTAGCGGACTGGAATTCGATGATCTCTGGCTGTTGGAAATCAGGAAATGAAACTGATGCGGTCATGCTGTTTAATATGATGCCTGCTAGGAATATTATCACATGGACTGCCATGGTTACTGGGTATGCCAAGATGGGGGACTTGGACAGTGCTAGAAGGTATTTTGATGAGATGCCAGAGAGAAGTGTAGTCTCATGGAATGCAATGCTATCAGCTTATGCTCAAAATGAATGTGCAGAAGAGGCTTTGAAATTGTTCCATCAAATGCTGAAAGAAGGGATCACTCCTGATGATACAACATGGGTTGCTACAATTTCATCATGCTCTTCCATCGGCAATCCTACCCTTGCTGATGCAATTCTAAGGAAGATCAACCAAAAGCATAGCATTTTGAATAATTTTGCCAAGACGGCTTTACTTGACATGCATGCAAAATTTGGTAACCTTGAAATTGCTAGAAATATCTTTGACGAATTGGGAGGTCAGAGGAATGCTGTTACTTGGAATATCATGATCTCAGCATATACGAGGGTAGGAAAAGTGTCATTAGCTCGAGAGTTGTTTGATAATATGCCAAAAAGAGATGTTGTTTCTTGGAATTCGATGATTGCTGGTTATGCACAAAATGGAGAGTCAGCCAAGTCAATTGAGCTCTTTCAAGAAATGATTTGTTGTCTGGACATACAGCCGGATGAGGTTACCATAGCTAGTGTTTTGTCTGCCTGTGGACATATTGGGGCTCTAAAATTGAGTAACTGGGTTCTAGATATCGTTCGAGAGAAAAACATTAAGTTGGGGATCTCAGGATTCAATTCTTTAATATTCCTGTACTCTAAATGTGGATGTGTGCCAGATGCCCATAGGATATTCCAAACTATGGAGAAAAGAGATGTTGTTTCTTTCAATACGCTAATTTCAGGATTGGCAGCCAATGGTCATGGGAAGGAAGCTATCAAGTTAGTATTAACAATGGAGGAAGAAGGCATTGAACCAGACCATGTCACATACATTGGTGTTTTGACTGCATGTAGCCATGCAGGGCTGCTGAAAGAAGGTAAAAACGTCTTTAAGTCAATTAAAGCACCTGCTGTGGATCATTATGCTTGTATGGTTGATTTATTAGGAAGAGCAGGTGAATTAGATGAAGCCAAAATATTGATTCAATCTATGCCGATGGAACCCCATGCTGGTGTTTATGGCTCTTTGTTAAATGCCAGTCGAATTCACAAGAGAGTTGAGTTGGGAGAACTTGCTGCTAACAAGCTCTTTGAGCTTGAACCTGAAAATCCTGGAAATTATGTTTTACTTTCTAATATATATGCCTCGGCTGGAAGATGGGAAGATGTTAAAAAGGTTAGAGAGAAGATGAGGAACGGAGGTGTGAAGAAATCAGTTGGGATGAGTTGGGTGGAATATAGGGGTCAAGTGCATAAGTTCATTGTGGGCGATAGATCACATGAACTATCAAAAGATATCTATAGATTATTGGCTGAACTTGAAAGGAAGATGAAGAGGGTTGGCTTTGTAGCTGATAAAAGTTGTGCACTTCGAGATGTTGAGGAGGAAGAGAAGGAAGAAATGCTGGGAACTCACAGTGAGAAGTTGGCCATTTGTTTTGCTCTCCTTATCAGTGAAGTGGGGACACCAATTAGAGTGCTGTGCAGATCTGAGTATGACACACTGGGAACATCAGTCAAAGCTGCACTTGTTTATCTTGGAACTGCCTTAGTAAAGCTTGTATGCCTTGCAACCTTTCTTAACGTGTCAGAGAATGACTCCTTTGACCTATATCAGGAACTGTTGAAAGCGCTTATCGGTTTGATTGATGTCGCTGGACTTTACTTTGCTTTGACCCAGTTGACTTACCGGAACATATCTCAAAACCATAAGTTTCAGGCCGTTGGACTGGGTTGGGCATTTGCTGATTCTGTTCTGCATAGATTGGCACCACTATGGGTCGGGGCCAGAGGACTGGAGTTTACTTGGGATTACATTTTGCAGGGCCTTGAAGCTAATGCAAATCTGGTGTTGAGTATATCTCTAGCTGCATTGGGATCTTTGATGTGGCTTCGGAAGAACAAGCCCAAGACTCTAATTCCCATAATATATATCTGTGCATTGATCGTGGCTACCATGCCATCCATTACAAGACTCAAAACTTGCAATAATCTTACCTATTTAGATGAGCCTTTTGCTGAATCTTTCTCCTTGCAAATTAGTTGGTTTTCCAGCAATTTGCAGGGTTTCAAGCTCCTTAGTTGCTATTCAAAATTCAGATATATAGAGAAGATGCATAATGTTAATACCCACTGCACATTGTGTTTTCAGCTACTTAAGGCGAGGAATGGGCTGGCACTTCCCAAAGGTGGTGGGATTTGA 2859 41.38 MYELGAIASKISNISQLRQLHGHFVLNSLHSHNYWVSVLLIICTRLHAHPAYAASIFTSSPSPNASVYSCMLKYYSRMGAHNEVVSLFRCMQSLDLRPQSFVYIYLIKLAGKYGNIFHANVMKLGHVDDHFIRNAILDMYAKYGQVDLARKLFEQMAERTLADWNSMISGCWKSGNETDAVMLFNMMPARNIITWTAMVTGYAKMGDLDSARRYFDEMPERSVVSWNAMLSAYAQNECAEEALKLFHQMLKEGITPDDTTWVATISSCSSIGNPTLADAILRKINQKHSILNNFAKTALLDMHAKFGNLEIARNIFDELGGQRNAVTWNIMISAYTRVGKVSLARELFDNMPKRDVVSWNSMIAGYAQNGESAKSIELFQEMICCLDIQPDEVTIASVLSACGHIGALKLSNWVLDIVREKNIKLGISGFNSLIFLYSKCGCVPDAHRIFQTMEKRDVVSFNTLISGLAANGHGKEAIKLVLTMEEEGIEPDHVTYIGVLTACSHAGLLKEGKNVFKSIKAPAVDHYACMVDLLGRAGELDEAKILIQSMPMEPHAGVYGSLLNASRIHKRVELGELAANKLFELEPENPGNYVLLSNIYASAGRWEDVKKVREKMRNGGVKKSVGMSWVEYRGQVHKFIVGDRSHELSKDIYRLLAELERKMKRVGFVADKSCALRDVEEEEKEEMLGTHSEKLAICFALLISEVGTPIRVLCRSEYDTLGTSVKAALVYLGTALVKLVCLATFLNVSENDSFDLYQELLKALIGLIDVAGLYFALTQLTYRNISQNHKFQAVGLGWAFADSVLHRLAPLWVGARGLEFTWDYILQGLEANANLVLSISLAALGSLMWLRKNKPKTLIPIIYICALIVATMPSITRLKTCNNLTYLDEPFAESFSLQISWFSSNLQGFKLLSCYSKFRYIEKMHNVNTHCTLCFQLLKARNGLALPKGGGI 952
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 23562641 23567462 - Lsi04G016060.1 Lsi04g01606 661655

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g01606 952 Pfam E motif 569 631 IPR046848 -
Lsi04g01606 952 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 222 256 IPR002885 -
Lsi04g01606 952 Gene3D Tetratricopeptide repeat domain 430 650 IPR011990 GO:0005515
Lsi04g01606 952 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 457 491 IPR002885 -
Lsi04g01606 952 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 589 623 IPR002885 -
Lsi04g01606 952 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 324 358 IPR002885 -
Lsi04g01606 952 Pfam PPR repeat 527 551 IPR002885 -
Lsi04g01606 952 Pfam PPR repeat 134 159 IPR002885 -
Lsi04g01606 952 Pfam PPR repeat 67 94 IPR002885 -
Lsi04g01606 952 Pfam PPR repeat 164 192 IPR002885 -
Lsi04g01606 952 Pfam PPR repeat family 456 504 IPR002885 -
Lsi04g01606 952 Pfam PPR repeat family 354 402 IPR002885 -
Lsi04g01606 952 Pfam PPR repeat family 222 268 IPR002885 -
Lsi04g01606 952 Pfam DYW family of nucleic acid deaminases 667 713 IPR032867 GO:0008270
Lsi04g01606 952 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 129 163 IPR002885 -
Lsi04g01606 952 PANTHER PPR CONTAINING PLANT-LIKE PROTEIN 61 198 - -
Lsi04g01606 952 PANTHER PPR CONTAINING PLANT-LIKE PROTEIN 200 710 - -
Lsi04g01606 952 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 191 221 IPR002885 -
Lsi04g01606 952 PANTHER REPEAT-CONTAINING PROTEIN, PUTATIVE-RELATED 61 198 - -
Lsi04g01606 952 PANTHER REPEAT-CONTAINING PROTEIN, PUTATIVE-RELATED 200 710 - -
Lsi04g01606 952 SUPERFAMILY TPR-like 197 614 IPR011990 GO:0005515
Lsi04g01606 952 Pfam Predicted membrane protein (DUF2053) 716 850 IPR019164 -
Lsi04g01606 952 Pfam PPR repeat 320 351 IPR002885 -
Lsi04g01606 952 Gene3D Tetratricopeptide repeat domain 189 276 IPR011990 GO:0005515
Lsi04g01606 952 Gene3D Tetratricopeptide repeat domain 121 188 IPR011990 GO:0005515
Lsi04g01606 952 Gene3D Tetratricopeptide repeat domain 277 409 IPR011990 GO:0005515
Lsi04g01606 952 Gene3D Tetratricopeptide repeat domain 12 120 IPR011990 GO:0005515
Lsi04g01606 952 TIGRFAM PPR: pentatricopeptide repeat domain 326 357 IPR002885 -
Lsi04g01606 952 TIGRFAM PPR: pentatricopeptide repeat domain 357 392 IPR002885 -
Lsi04g01606 952 TIGRFAM PPR: pentatricopeptide repeat domain 224 257 IPR002885 -
Lsi04g01606 952 TIGRFAM PPR: pentatricopeptide repeat domain 193 224 IPR002885 -
Lsi04g01606 952 TIGRFAM PPR: pentatricopeptide repeat domain 459 492 IPR002885 -
Lsi04g01606 952 TIGRFAM PPR: pentatricopeptide repeat domain 134 158 IPR002885 -
Lsi04g01606 952 TIGRFAM PPR: pentatricopeptide repeat domain 164 192 IPR002885 -
Lsi04g01606 952 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 64 98 IPR002885 -
Lsi04g01606 952 Pfam E+ motif 636 663 IPR046849 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g01606 - - - csv:101214420 1281.54
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g01606 Lsi-Chr4:23562641 Lsi06g00945 Lsi-Chr6:19384143 2.75E-164 dispersed
       

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
Vvi18g840 . . . . . . . . . . . Cma09g00195 Car01g01463 . . Cpe06g00133 . . . . . . . . . . . . . . . . . Cone17ag1308 Cone20ag0164 Lsi04g01606 Csa03g04153 Chy04g00567 . . . Bda08g01317 . . Bpe05g00070 . . . . Cmo09g00191 . . . Car09g00165 . . Bhi09g02027 . . . . Mch11g0242 . Cla05g01993 . . . . . . . . . .
       

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
OG0003631 2 2 2 3 1 1 2 1 2 1 2 0 2 1 1 2 1 4 2 1 1 1 1 1 0 1 1 2 1 2 44
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g01606 Lsi_Chr04 FPKM 0.161935 0.277475 0.109526 0.150072 1.105429 0.695797 0.462398 0.195906 0.111103 0.150875