Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi06g01584 ATGGCTGATGACATTTACGGCGGCGCTTCTCTTCCATCAGGTCCCGATGGCCGGAAACGCCGTGTGACCTACTTCTACGAGCCCACAATCGGCGATTACTATTACGGACAAGGCCATCCGATGAAACCTCACCGTATCCGCATGGCCCATAACCTCATCGTTCACTACGGCCTTCACCGTCGGATGGAGATCAACCGGCCCTACCCTGCCGGTACTGAGGACATCCGGAGGTTTCACTCTGATGACTATGTCGATTTCATCGCCTCCGTCAGCCCCGAAACGCTGTCGGATCACGCTTTCTCTCGCCACCTTAAGCGCTTTAATGTTGGTGAGGACTGCCCTGTTTTTGATGGCTTATTCGGCTTCTGCCAGGCCTCTGCTGGCGGCTCCATTGGTGCTGCCGTCAAGCTCAATCGCGGCGATGCTGATATTGCTATCAATTGGGCTGGTGGGCTTCATCATGCTAAGAAGTCTGAGGCCTCCGGTTTCTGTTACGTCAATGATATTGTATTGGGCATTCTTGAGCTGCTGAAGTATCACAGGCGTGTACTATATATTGACATTGATGTCCATCATGGTGATGGCGTGGAGGAGGCATTTTACACTACTGACAGAGTAATGACGGTCTCTTTTCATAAATTTGGGGATTTCTTTCCAGGGACTGGGCACATTAAGGATGTTGGAGTAGGGACTGGTAAAAACTATGCCCTTAATGTCCCCTTAAATGATGGAATGGATGATGACAGTTTTCGTGGTCTGTTTAGGCCACTCATTCAAAAAGTTATGGAGGTGTATCAGCCAGATGCAGTAGTACTCCAATGCGGAGCTGATTCATTGTCTGGTGATAGGTTAGGGTGCTTCAACTTATCTGTGAAGGGCCATGCAGATTGTCTTCGTTTCTTGAGATCATTTAATGTTCCTTTAATGGTATTAGGTGGAGGAGGATATACAATCCGCAATGTTGCTCGCTGCTGGTGTTACGAGACAGCAGTTGCTGTTGGAGTTGAACCAGACAATAAATTGCCTTACAACGAGTATTTCGAGTATTTTGGACCTGATTACGCGCTTCACATAGAACCATCCAACATGGAGAATCTTAATTCGCCTAAAGATATGGAAAAGATAAGGAACACCCTGCTGGAGCAACTCTCTAGACTCCCACATGCACCCAGTGTACCTTTCCAGATGACTCCCTCGTCAGAAGTTCCGGAAGAGGTTGAAGAGAACATTGAACATAGACCCAAACGCCGCATCTGGAATGGTGAGGATTATGATTCTGATTCTGAAGAAAACCGAAAGCGACCAAACATTAGTGAAGGGACTGGTGTAAATAACCTGACAAGTGAAACAGAGTTGAATTGTGAAACCCAGTTGATGGTTATTGATCTAGAACTTTTCATGTCGTTTTATATCCATATACTCACGTCGGAGCTTTCCAAGAAATTTCTAACTCTTCTACGAACAAAGGAACTGCATGCTTTTATTACCAAAGCCCATCTTGCTTGCGACCCATTTTACGCAACTAGAATTGTCAGGTTCTACTCCATCAATGGTAGACTCGACAATGCCCGCAATGTATTCGACAAAATTCCCAACCGAAGTGTCTACCTCTGGAACTCAATCATTCGAGCTTACGCGAAAGCCAATAAATTCGGGGATGCATTATCTCTGTTCTTTACAATGTTTGGAACTGAGACTGTGCCCGATAACTTCACCTATTCATGCATCATAAGGGCATGCTCTGAGAATTTCCATAGAGATTGGCTGAAACTTGTTCATGGACGAGTTTTAGTATCTGGGTTTGGATTAGATCCTATCTGTTGCAGCGCCCTAGTGACTGCATACTCAAATCTAGACCTTATTGAAGATGCAAGCAAGGTGTTTGATGGAATGCCTCATCCAGACTTGGTTCTGTGGAATTCAATCATTTCTGGTTTTGGGTATTGCGGGTATTGGAATCAGGGGCTCTTGTTATTTTCTAGGATGAGGAATCTTGGAGAACATCCGGATGGATACACGGTAGTTGGTGTGGCATTGTGTATAGCAGAACCTAGCCTACTGAGCACTGGCAAAGGTATTCATGGATTTTGCCTCAAATGTTGTTTTAACTCTAATGAGCACGTAGCTAGTGCACTTGTGAGTATGTATTCGAGGTGTAATTGCATGGATTCAGCATATTTAGTTTTTAGTAGTTTGTTACAGCCTGATTTAGTTACATGGTCTGCTTTAATAACCGGGTATTCTCAAGCTGGTGATTTTAGTAAGGCACTGTTCTTCTTTCAGAAACTGAATATGCAGTGTAAGAAGCCGGATTCCATTTTGATTGCCAGTATTTTGGCTGCTACTGCTCAATCAACCAACATAAGGCATGGACTTGAGATACATGGTTTTGTTCTTCGACAAGGGATAGAATCAAGCGAGATGGTATGCTCTTCCCTCATAGACATGTATTCCAAGTGTGGTTATTTGAGTTTAGGAATTCGTGTTTTTCATATTATGCCACAAAAAAGCATCTTGACATACAATTCTGTAATATGGGGAATTGGTTTGCATGGACTTGCATCAAAGGCATTGGAAATGTTTGAGGAGTTGTTGGACATTGGTTTAGTGCCTAATGAGTCCACTTTCTCTGCTCTTCTCTGTGCATGCTGCCATGTTGGTCTTAGCTCTGTTGGCAAGGAGATCTTCAAAAGGATGAAAGATGAGTTTTGCATCAAATACAGAACAGAACATTATGTTTACATTGTAAAACTTCTTGGAATGACTGGCGAGTTAGGAGAGGCTTACAATCTTGTTCTGTCCTTACCAGAGCCTGTAGTCTCTGGTATTTGGGGAGCTCTACTGTCCTGCTGTGATGCTTGTGGGAACCTTGAATTGGCTGAAGTTGTTGCTAGGCGGCTCGTAGAAATAGATCCTGACAAAACTGCTTATAAAGTAATGCTCTCTAACATTTATGCTGGAGAAGGGAGATGGGATGATGTGAAGAAGTTAAGGGATACAATGACTGAAAAGGAACGAGGAAAATTGCCCGGGCTTAGCTGGATTTGA 3048 44.03 MADDIYGGASLPSGPDGRKRRVTYFYEPTIGDYYYGQGHPMKPHRIRMAHNLIVHYGLHRRMEINRPYPAGTEDIRRFHSDDYVDFIASVSPETLSDHAFSRHLKRFNVGEDCPVFDGLFGFCQASAGGSIGAAVKLNRGDADIAINWAGGLHHAKKSEASGFCYVNDIVLGILELLKYHRRVLYIDIDVHHGDGVEEAFYTTDRVMTVSFHKFGDFFPGTGHIKDVGVGTGKNYALNVPLNDGMDDDSFRGLFRPLIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCLRFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYFEYFGPDYALHIEPSNMENLNSPKDMEKIRNTLLEQLSRLPHAPSVPFQMTPSSEVPEEVEENIEHRPKRRIWNGEDYDSDSEENRKRPNISEGTGVNNLTSETELNCETQLMVIDLELFMSFYIHILTSELSKKFLTLLRTKELHAFITKAHLACDPFYATRIVRFYSINGRLDNARNVFDKIPNRSVYLWNSIIRAYAKANKFGDALSLFFTMFGTETVPDNFTYSCIIRACSENFHRDWLKLVHGRVLVSGFGLDPICCSALVTAYSNLDLIEDASKVFDGMPHPDLVLWNSIISGFGYCGYWNQGLLLFSRMRNLGEHPDGYTVVGVALCIAEPSLLSTGKGIHGFCLKCCFNSNEHVASALVSMYSRCNCMDSAYLVFSSLLQPDLVTWSALITGYSQAGDFSKALFFFQKLNMQCKKPDSILIASILAATAQSTNIRHGLEIHGFVLRQGIESSEMVCSSLIDMYSKCGYLSLGIRVFHIMPQKSILTYNSVIWGIGLHGLASKALEMFEELLDIGLVPNESTFSALLCACCHVGLSSVGKEIFKRMKDEFCIKYRTEHYVYIVKLLGMTGELGEAYNLVLSLPEPVVSGIWGALLSCCDACGNLELAEVVARRLVEIDPDKTAYKVMLSNIYAGEGRWDDVKKLRDTMTEKERGKLPGLSWI 1015
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 26245458 26250610 - Lsi06G015840.1 Lsi06g01584 666314

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi06g01584 1015 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 534 568 IPR002885 -
Lsi06g01584 1015 Pfam PPR repeat 637 666 IPR002885 -
Lsi06g01584 1015 Pfam PPR repeat 607 631 IPR002885 -
Lsi06g01584 1015 Pfam PPR repeat 738 762 IPR002885 -
Lsi06g01584 1015 Pfam PPR repeat family 534 580 IPR002885 -
Lsi06g01584 1015 Pfam PPR repeat family 837 885 IPR002885 -
Lsi06g01584 1015 Gene3D Histone deacetylase domain 18 393 IPR037138 -
Lsi06g01584 1015 Gene3D Tetratricopeptide repeat domain 698 792 IPR011990 GO:0005515
Lsi06g01584 1015 Gene3D Tetratricopeptide repeat domain 474 589 IPR011990 GO:0005515
Lsi06g01584 1015 Gene3D Tetratricopeptide repeat domain 590 684 IPR011990 GO:0005515
Lsi06g01584 1015 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 837 871 IPR002885 -
Lsi06g01584 1015 PANTHER REPEAT-CONTAINING PROTEIN, PUTATIVE-RELATED 471 1014 - -
Lsi06g01584 1015 CDD HDAC_classI 25 332 - -
Lsi06g01584 1015 PANTHER OS01G0545900 PROTEIN 471 1014 - -
Lsi06g01584 1015 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 736 770 IPR002885 -
Lsi06g01584 1015 SUPERFAMILY Arginase/deacetylase 20 385 IPR023696 -
Lsi06g01584 1015 MobiDBLite consensus disorder prediction 405 436 - -
Lsi06g01584 1015 Pfam Histone deacetylase domain 39 330 IPR023801 -
Lsi06g01584 1015 SUPERFAMILY TPR-like 514 995 IPR011990 GO:0005515
Lsi06g01584 1015 Gene3D Tetratricopeptide repeat domain 840 1015 IPR011990 GO:0005515
Lsi06g01584 1015 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 872 906 IPR002885 -
Lsi06g01584 1015 Pfam E motif 956 1015 IPR046848 -
Lsi06g01584 1015 TIGRFAM PPR: pentatricopeptide repeat domain 875 904 IPR002885 -
Lsi06g01584 1015 TIGRFAM PPR: pentatricopeptide repeat domain 738 763 IPR002885 -
Lsi06g01584 1015 TIGRFAM PPR: pentatricopeptide repeat domain 637 670 IPR002885 -
Lsi06g01584 1015 TIGRFAM PPR: pentatricopeptide repeat domain 536 569 IPR002885 -
Lsi06g01584 1015 MobiDBLite consensus disorder prediction 391 444 - -
Lsi06g01584 1015 PRINTS Histone deacetylase superfamily signature 150 173 IPR000286 -
Lsi06g01584 1015 PRINTS Histone deacetylase superfamily signature 182 197 IPR000286 -
Lsi06g01584 1015 PRINTS Histone deacetylase superfamily signature 267 277 IPR000286 -
Lsi06g01584 1015 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 635 669 IPR002885 -
Lsi06g01584 1015 PRINTS Histone deacetylase signature 169 185 IPR003084 GO:0004407|GO:0016575
Lsi06g01584 1015 PRINTS Histone deacetylase signature 74 92 IPR003084 GO:0004407|GO:0016575
Lsi06g01584 1015 PRINTS Histone deacetylase signature 228 241 IPR003084 GO:0004407|GO:0016575
Lsi06g01584 1015 PRINTS Histone deacetylase signature 245 263 IPR003084 GO:0004407|GO:0016575
Lsi06g01584 1015 PRINTS Histone deacetylase signature 41 58 IPR003084 GO:0004407|GO:0016575
Lsi06g01584 1015 PRINTS Histone deacetylase signature 128 148 IPR003084 GO:0004407|GO:0016575
Lsi06g01584 1015 PRINTS Histone deacetylase signature 107 124 IPR003084 GO:0004407|GO:0016575
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi06g01584 K06067 HDAC1_2; histone deacetylase 1/2 [EC:3.5.1.98] - cpep:111779824 971.074
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi06g01584 Lsi-Chr6:26245458 Lsi11g01321 Lsi-Chr11:21841481 0 dispersed
Lsi06g01584 Lsi-Chr6:26245458 Lsi10g00022 Lsi-Chr10:367058 0 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
Vvi17g806 . . . Bda15g00544 Bpe12g00667 . . . . . . Cma11g00075 Car10g00090 Car11g00067 . . Cpe04g01577 Bhi02g00504 Tan09g2293 . . Hepe09g0228 . . Cla06g01690 . . . . . . Cone2ag0926 Cone16ag0079 . . . . . . Blo13g00141 . . . . . . Bma08g00086 . Cmo10g00105 Cmo11g00076 . . . . . Cpe18g00862 . . . . . . . . . . . . . . Lsi06g01584 Csa01g00119 Chy02g02608 Cme02g02005
       

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
OG0014459 0 1 1 0 0 1 1 0 0 1 1 1 0 0 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 21
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi06g01584 Lsi_Chr06 FPKM 0.982103 3.408055 2.997933 2.848095 2.105494 2.848624 1.756869 2.871784 2.63998 2.522693