Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g02320 ATGGTGGGATGTCCTGAGCTTCTTGACCTGATCTCTAGGGATAGGGAATGGGACCTGACTAGAAATGGTGTTGGAAGTTCTGTTAGTGAGAATAATAAACTTGAACTGAGACTTGGATTGCCAGGAGAAGGAAGTAGCTGCTTGAATAGTAACCATGAAAATGGTGAATTCCCTCTCTCTTCTGCTAAGCCATTTCCTTCTTGTTTGAACATTAGAAACAACAAAAGGGCGCTTTATGAGAAAGCTGAAGGAATGGCAGGAGATGAATTCCAACCCCACAAGCTGATTTTCTATGAGAAAACAGCTGAGAAGGTGTCTCCTCACACTCCCTCTCTTAGTGCTTCCTTACCATCTTCAGCTTTTCAGAGGGAAGCTCAGAAGCTATCTCAACCGTCACAATCTTCATATTTGAAACATTTATTGATGCCTCAGAAATTGGACTTGGTGTCAGAGGAGCCATCAAAGCCATGCAGTTTGAAAACAGCTGATTTGAAATCATGTCTCAACAGTGGTTCAGTTCCTGCAGAATCATCTGAACCTAAACACCATGACAAAAGGGCTTCAGTTGCAGCAGCCGTTGGTTGGCCCCCCATCCGTTCTTTCAGGAAGAACTTTGCTGCTCCCCGCTCTTCAAAGCCTAACTCGCTGGAGTTGTCAAAAGAAACTGTGCAGGATGAGAATGGCTCAAAATTATCTGACTGTTCCAAGGGACAAATGTTTGTGAAAGTTTGTATGGATGGGGTTCCCATTGGAAGAAAACTGAATCTCCAAGCCTATAATAGTTATGATCAACTGTCTGCTGGCATAGACGAACTCTTCCACTGTCTTCTTGCAGCACAGAGAAACTATCTAGCAGCTGAAGATGGGAGAAAGACGGAGGAAACAACTTCAGTATCTGAATCCAAACACAAAAATGGGCTGTACACTCTAGTTTACTATGATAATGAAGGGGACAGGATGCTTGTTGGTGATGTCCCGTGGAACATGTTTGTTTCCACTGTGAAGAGGCTACGTGTATTGAAGAGCTCCGTTGTTGCCACTGAAATGAAGTATGAATCTTCATCCAATGCCAAAAGAGCACAAACAGGAAACAAGGGTAATAGTGCCAATTTTCCAGCACCAGAGACAAAACTCCAAAAAAAAAAGGGCTTGTGGGTTGGGAGGCTTGGGCGCAATCAAATCCTTCCAACCATCCTCACAAACAAAGCAAGCAATAAAAGAAGCCGGCGGCACAACAGTTCCACTCTGTATCTTCAATTCTACATGCTTCTCAGAGCCTCCCCTCTTCTTCGCGCCTCCCACCTTCCAGTCCCCTCTGGGATTCACATGGCGCTAGCTGCCCATCTCCCTTTCTATCCCAACTGTAAAAGTTCCACTTCATGGCGATCTTCTCCGCACTTGGTTTCTGTTTGTCAAGAGAATGGTTACGACCGCATTTCAGCCAAAATAACTTTTTCACAATTTGTTCGAAGTTTCTACGTTTTATCGGGAACATACAATAAGGTACAGAGACCCTGTGGAAGGATTTCTTGTGGGCAAAGAGAGTATCGAAACGTGAGAAGACGAGCCCCAAAGAGTAAGATTAAGGAATTAGAGCTCAACGTCAGTATATGTATTGAAGAAGAATTGCCGGACGACCCAGAAATTTTGAGTATTGCAGAAATGCTTCGTTTGAATGTTCCTAAGGCTCTGAAGTTAGCTTTCAACAATTTAAAGGATTCAGAATATAAAACTCGAGATAGTTCAATAGGTGATGTTGGTTTATTTGATAGTGTCGAGTTGTCCGTGCTACTTTGTAATGACGAGTTTATTCGTAAACTTAACAAAGAATGGAGGGATGAGGATCATGCCACTGATGTTCTGTCCATGTCACAGCATGTCCCTGAACTGAAGCTTCCAATTCTTATGTTAGGTGATATTGTCATTTCTGTTGAGACTGCCGCAAGGCAGGCGGAGGAAAGGGGGCACACACTCCTTGATGAAGTTCGGATACTCCTGGAATGTCAAAATTATGTGAAAGAAAAGAAAAGCAGTCGAATTTTTTACTATAAAAAATTCAACGAAGCAAAGGTGCATGGATTGTTGCATCTTGTGGGATTTGATCATGAGGTTAGCGAAGAGGCTGAAGTAGAGATGGAGAAGGAGGAGGAACTACTTTTGAAGAGTTTAGAATGGAAAGGGAAAGGGCTAATTCAGAGTGCAATTGATGCTGAAACAAATTCAAACTCAGCTGCAGTAGTTTCAGATGGTACATTGCTCAACAGTAAAAGTCAAATTACTCCAACAACTGCCAAGGCTCTGAAAGAGGTCTTGTCAAGGGGTGTGAAAGTTGTTATAGCCACTGGAAAGGCCCGCCCAGCAGTAATAAGCATTTTGGAGAAGGCAGGTTTAGCTGGAAAAGATGGTGCAGTGTCTGAATATTCTCCTGGAGTTTTCTTACAGGGACTACTCGTTTATGGTAGACAAGGAAAAGAAATTTATAGGCGGAACTTAGACCAAGATGTCTGCAGAGAGGCATGCCTTTATTCTTTAGAGAAGAAAGTTCCTCTGATTGCATTTGGTGAAGGCCGTTGCTTAACTCTATTTGATCATCCACTTGCTGATGCATTGCACACTATATATCATGAGCCCAAGGCAGAGGTCATGTCCTCTGTTGAGAATCTTTTGGCTGCAGCTGAAATACAGAAACTTATTTTCTTGGACACTGCCGAAGGAGTTTCACACACCTTACGACCATACTGGTCAGAAGCATCAGGGGAACACGCCTCGGTTGTTCAAGCTGTACCAGATATGCTCGAGATTGTCCCCCGTGGAACCTCAAAAGGTAGTGGAGTAAAAATGCTGCTCGATCATTTGGGAGTTTCTGCTGAGGAGGTAATGGCTATTGGAGATGGGGAAAATGACATTGAGATGCTTGAATTAGCATCTCTTGGGGTTGCTTTGAGTAATGGATCAGAGAAAACAAAAGCTGTTGCTAACTTAATTGGTCCCGGCAATGATGAAGATGGTGTTGCAGAGTCGCCAATTTTTCTAAGCACCCTGGCTGTTCTTCACGACTACAACCACCGCAAAATCATCCACCTTCTTCTACGATGCGCCGCCCAGCTTTCAATGCGTCAGCTTTACGAAATCCAAGCCCAAGTCTTTGCCTCCCCAATCCCCTCCATCGATCCCAATCTCATTGCCGTCAAGTTCATCGGCGTTTCCTCTTCCCATGGCAACGTCCGCCATTCTGTTCTCATCTTCAATCACTATCTATCTTCTCCAAACATCTTTGCCTACAATGCTCTTCTCAAAGCCTTTGCTCAACACAATGCTTGGCACAGTACCATTTCTTACTTCAATAACCAGTTGGTTTTGCCTGATGCTCCAAACCCAGATGAATATACCTTCACTTCTGTACTCAAGGCCTGCGCTGGCCTTGCCCAGGTGCTCGAAGGCCAAAAAGTCCACTGTTTCGTCACCAAATATGGCTGCGAATCAAACCTGTTTGTTAGGAATTCACTGGTCGATTTGTATTTTAAGGTCGGTTGCAATTGTATTGCCCAGAAGCTGTTTGATGAAATGGTTGTGAGAGATGTTGTTTCATGGAACACTTTGATTTCAGGATATTGTTTTAGTGGGATGGTAGACAAAGCTCGGATGGTATTTGATGGGATGATGGAGAAAAACTTGGTGTCCTGGTCGACAATGATCAGCGGATATGCAAGGATGGGAAATTTAGAAGAAGCACGGCAACTGTTTGAGAATATGCCAATAAGGAATGTGGTTTCTTGGAACGCAATGATTGCTGGATATGCACAGAATGAGAAGTATGCAGATGCTATTGAGTTGTTCAGGCAAATGCAGCATGAAGGCGGCCTAGCTCCGAACGATGTTACTCTTGTTAGCGTGCTTTCAGCTTGTGCACATCTTGGTGCACTTGATCTAGGGAAGTGGATTCATAAGTTTATAAGACGAAGCAAGATGGACGTAGGTCTGTTTTTAGGGAATGCATTGGCAGACATGTATGCAAAGTGTGGATGCATATTGGAGGCCAAGGGGGTGTTTAACGAAATGCAGGAGAGAGATGTAATCTCATGGAGTATAATAATCATGGGGTTGGCCATGTATGGATATGCAGATGAAGCATTCAACTGCTTTGCTGAAATGATTGAAGATGGTTTAAAGCCAAATGATATTTCCTTTATGGGTTTATTAACAGCCTGCACTCATGCTGGATTGGTTGATAAGGGGCTGGAGTACTTTGACATGATGGCTCAAGTCTATGGTATTACTCCCAAGGTTGAGCATTATGGGTGTATTGTTGATCTTCTTAGCCGTGCAGGGCGTCTCGATCAAGCTGAGTCATTGATTAACTCCATGCCTATGCAACCTAATGTAATAGTTTGGGGTGCACTGCTCGGTGGTTGTCGGATATACAAAGATGCAGAACGAGGAGAACGTGTTGTTCGGCACATACTTGAACTAGACTCCAACCATTCTGGAAGTCTTGTTTATCTAGCTAATGTTTATGCTTCAATGGGCAGGCTGGATGATGCAGCTACTTGTAGGTTGCGAATGCGAGACAACAAGTCGATGAAGACACCGGGGTGCAGTTGGATTGAGATCGACAACTCGGTATATGAATTTTTCATGGGGGACTTGTCTCATCCTCAGTCTGCAAAAATATACTCAATGATTAGAGAATTGAAGTGGAAGATGAAAGTGGCAGGATATAAACCAAAGACGGATCTTGTGATTCATAATATAGATGAAGAAGAGAAGGAGGATGCACTTTCTACTCATAGTGAGAAGCTTGCCATTGCATTTGGGCTTATCAATACCAGTGAAGGAACTACAATCAGAATAGTTAAGAACTTGAGAGTTTGCAACGACTGTCATGATGCAATAAAAATAATCTCAAAAATTGTTGAGCGAGAGATTGTGGTGCGAGATAGAAGTCGTTTTCACCATTTCAAAAATGGAAAATGTTCTTGTAATGATTACTGGTAA 4995 43.18 MVGCPELLDLISRDREWDLTRNGVGSSVSENNKLELRLGLPGEGSSCLNSNHENGEFPLSSAKPFPSCLNIRNNKRALYEKAEGMAGDEFQPHKLIFYEKTAEKVSPHTPSLSASLPSSAFQREAQKLSQPSQSSYLKHLLMPQKLDLVSEEPSKPCSLKTADLKSCLNSGSVPAESSEPKHHDKRASVAAAVGWPPIRSFRKNFAAPRSSKPNSLELSKETVQDENGSKLSDCSKGQMFVKVCMDGVPIGRKLNLQAYNSYDQLSAGIDELFHCLLAAQRNYLAAEDGRKTEETTSVSESKHKNGLYTLVYYDNEGDRMLVGDVPWNMFVSTVKRLRVLKSSVVATEMKYESSSNAKRAQTGNKGNSANFPAPETKLQKKKGLWVGRLGRNQILPTILTNKASNKRSRRHNSSTLYLQFYMLLRASPLLRASHLPVPSGIHMALAAHLPFYPNCKSSTSWRSSPHLVSVCQENGYDRISAKITFSQFVRSFYVLSGTYNKVQRPCGRISCGQREYRNVRRRAPKSKIKELELNVSICIEEELPDDPEILSIAEMLRLNVPKALKLAFNNLKDSEYKTRDSSIGDVGLFDSVELSVLLCNDEFIRKLNKEWRDEDHATDVLSMSQHVPELKLPILMLGDIVISVETAARQAEERGHTLLDEVRILLECQNYVKEKKSSRIFYYKKFNEAKVHGLLHLVGFDHEVSEEAEVEMEKEEELLLKSLEWKGKGLIQSAIDAETNSNSAAVVSDGTLLNSKSQITPTTAKALKEVLSRGVKVVIATGKARPAVISILEKAGLAGKDGAVSEYSPGVFLQGLLVYGRQGKEIYRRNLDQDVCREACLYSLEKKVPLIAFGEGRCLTLFDHPLADALHTIYHEPKAEVMSSVENLLAAAEIQKLIFLDTAEGVSHTLRPYWSEASGEHASVVQAVPDMLEIVPRGTSKGSGVKMLLDHLGVSAEEVMAIGDGENDIEMLELASLGVALSNGSEKTKAVANLIGPGNDEDGVAESPIFLSTLAVLHDYNHRKIIHLLLRCAAQLSMRQLYEIQAQVFASPIPSIDPNLIAVKFIGVSSSHGNVRHSVLIFNHYLSSPNIFAYNALLKAFAQHNAWHSTISYFNNQLVLPDAPNPDEYTFTSVLKACAGLAQVLEGQKVHCFVTKYGCESNLFVRNSLVDLYFKVGCNCIAQKLFDEMVVRDVVSWNTLISGYCFSGMVDKARMVFDGMMEKNLVSWSTMISGYARMGNLEEARQLFENMPIRNVVSWNAMIAGYAQNEKYADAIELFRQMQHEGGLAPNDVTLVSVLSACAHLGALDLGKWIHKFIRRSKMDVGLFLGNALADMYAKCGCILEAKGVFNEMQERDVISWSIIIMGLAMYGYADEAFNCFAEMIEDGLKPNDISFMGLLTACTHAGLVDKGLEYFDMMAQVYGITPKVEHYGCIVDLLSRAGRLDQAESLINSMPMQPNVIVWGALLGGCRIYKDAERGERVVRHILELDSNHSGSLVYLANVYASMGRLDDAATCRLRMRDNKSMKTPGCSWIEIDNSVYEFFMGDLSHPQSAKIYSMIRELKWKMKVAGYKPKTDLVIHNIDEEEKEDALSTHSEKLAIAFGLINTSEGTTIRIVKNLRVCNDCHDAIKIISKIVEREIVVRDRSRFHHFKNGKCSCNDYW 1664
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 30394260 30408133 - Lsi04G023200.1 Lsi04g02320 662369

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g02320 1664 MobiDBLite consensus disorder prediction 207 222 - -
Lsi04g02320 1664 Pfam DYW family of nucleic acid deaminases 1572 1664 IPR032867 GO:0008270
Lsi04g02320 1664 Pfam AUX/IAA family 34 343 IPR033389 -
Lsi04g02320 1664 SUPERFAMILY Metalloproteases ("zincins"), catalytic domain 590 723 - -
Lsi04g02320 1664 Gene3D - 830 937 - -
Lsi04g02320 1664 SUPERFAMILY HAD-like 749 1006 IPR036412 -
Lsi04g02320 1664 MobiDBLite consensus disorder prediction 352 374 - -
Lsi04g02320 1664 SUPERFAMILY CAD & PB1 domains 232 340 - -
Lsi04g02320 1664 Pfam PPR repeat family 1356 1403 IPR002885 -
Lsi04g02320 1664 Pfam PPR repeat family 1254 1303 IPR002885 -
Lsi04g02320 1664 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 1357 1391 IPR002885 -
Lsi04g02320 1664 TIGRFAM HAD-SF-IIB: HAD hydrolase, family IIB 749 980 IPR006379 -
Lsi04g02320 1664 Pfam PPR repeat 1431 1455 IPR002885 -
Lsi04g02320 1664 PANTHER REPEAT-CONTAINING PROTEIN, PUTATIVE-RELATED 1038 1624 - -
Lsi04g02320 1664 MobiDBLite consensus disorder prediction 204 230 - -
Lsi04g02320 1664 Pfam E motif 1474 1536 IPR046848 -
Lsi04g02320 1664 Pfam Endoribonuclease YbeY 590 722 IPR002036 GO:0004222|GO:0006364
Lsi04g02320 1664 SUPERFAMILY TPR-like 1235 1517 IPR011990 GO:0005515
Lsi04g02320 1664 TIGRFAM PPR: pentatricopeptide repeat domain 1195 1226 IPR002885 -
Lsi04g02320 1664 TIGRFAM PPR: pentatricopeptide repeat domain 1257 1291 IPR002885 -
Lsi04g02320 1664 TIGRFAM PPR: pentatricopeptide repeat domain 1359 1392 IPR002885 -
Lsi04g02320 1664 TIGRFAM PPR: pentatricopeptide repeat domain 1331 1358 IPR002885 -
Lsi04g02320 1664 TIGRFAM PPR: pentatricopeptide repeat domain 1226 1255 IPR002885 -
Lsi04g02320 1664 Gene3D Tetratricopeptide repeat domain 1059 1223 IPR011990 GO:0005515
Lsi04g02320 1664 Gene3D Tetratricopeptide repeat domain 1331 1569 IPR011990 GO:0005515
Lsi04g02320 1664 ProSitePatterns Uncharacterized protein family UPF0054 signature. 692 702 IPR020549 -
Lsi04g02320 1664 Pfam PPR repeat 1191 1220 IPR002885 -
Lsi04g02320 1664 Pfam PPR repeat 1222 1251 IPR002885 -
Lsi04g02320 1664 Gene3D Tetratricopeptide repeat domain 1224 1310 IPR011990 GO:0005515
Lsi04g02320 1664 Gene3D - 233 353 - -
Lsi04g02320 1664 ProSiteProfiles PB1 domain profile. 238 347 IPR000270 GO:0005515
Lsi04g02320 1664 TIGRFAM Cof-subfamily: Cof-like hydrolase 749 1006 IPR000150 GO:0016787
Lsi04g02320 1664 Hamap Endoribonuclease YbeY [ybeY]. 534 732 IPR002036 GO:0004222|GO:0006364
Lsi04g02320 1664 Gene3D - 749 1006 IPR023214 -
Lsi04g02320 1664 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 1255 1289 IPR002885 -
Lsi04g02320 1664 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 1193 1227 IPR002885 -
Lsi04g02320 1664 Pfam haloacid dehalogenase-like hydrolase 749 1006 - -
Lsi04g02320 1664 PANTHER PENTATRICOPEPTIDE REPEAT PROTEIN 1038 1624 - -
Lsi04g02320 1664 Gene3D Metalloproteases ("zincins"), catalytic domain 565 725 IPR023091 GO:0004222
Lsi04g02320 1664 TIGRFAM TIGR00043: rRNA maturation RNase YbeY 593 665 IPR002036 GO:0004222|GO:0006364
Lsi04g02320 1664 ProSitePatterns Hypothetical cof family signature 2. 962 984 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g02320 - - - csv:101222145 1274.61
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g02320 Lsi-Chr4:30394260 Lsi06g00945 Lsi-Chr6:19384143 0 dispersed
Lsi07g00527 Lsi-Chr7:5608566 Lsi04g02320 Lsi-Chr4:30394260 2.22E-36 dispersed
Lsi04g02320 Lsi-Chr4:30394260 Lsi11g00289 Lsi-Chr11:3000350 4.27E-166 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
Vvi4g30 . . . . . . . . . . . . Car09g00553 . . . Cpe06g00482 . . . . . . . . . . . . . . . . . . Lsi04g02320 Csa03g04539 Chy04g00164 . . . . . . . . . Sed12g1384 . . Cma09g00626 . . . . . Bhi09g02561 Tan01g3910 Cmetu04g0733 . Hepe01g2210 Mch11g0758 . . . . . . . . . . . Cme04g00188
       

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
OG0009056 1 1 0 1 1 0 1 1 1 1 1 1 1 1 1 2 1 4 1 1 1 1 1 1 1 1 1 1 1 1 32
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25261 PF02309 AUX_IAA 2.70E-56 CL0072 Lsi TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g02320 Lsi_Chr04 FPKM 1.30047 1.613937 1.095549 0.696919 2.194425 1.679796 2.815229 1.69574 0.998807 1.34586