Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi11g01345 ATGTCTTCAACGTCAACAAATAAGACTGTGTGTTCTAAGACCAGCTGCGACCGATCGAAACATGGGGTTCATGTGGTTGCACAAACCCCAATTGATGCAAAGCTTCATGTAGACTTTGAAGGTTCTGAAAGGTTCTTTGATTACTCTGCGTCGGTTGATTTCAACGCTGCATGTTCCACTAGCAATGTTCATGTCTCCACTGTACAGTCATACCTTCAAAACATTCAGAGAGGAAGTCTAGTTCAACCATTTGGTTGTATGATTGCTGTGGATGGGGAAAACTTGTCTGTCCTTGCATATAGTGAAAATGCCCCTGAAATGTTGGACTTAGCCCCACACGCTGTGCCTAATATCGAGCAGCAAGAAGCTCTAACATTTGGAACAGATGTACGAACACTTTTTCGTTCCCCGGGAGCTGCAGCTTTACAGAAAGCAGCTGACTTTAAGGAAGTTAATCTTCTCAATCCTATTCTAGTCCATTGTAAAACTTCAGGTAAACCATTTTATGCAATTTTGCATCGAATAGACGTGGGATTAATTATAGATCTGGAACCAGTTAATCCAGCTGATGTGCCAGTGACTGCAGCTGGGGCATTGAAATCTTATAAGCTAGCAGCTAAAGCCATCTCAAAATTGCAGTCCTTGCCTAGTGGGAATATATCTCTTTTATGTGAGGTATTGGTCAAGGAGGTCAGCGATTTGACAGGTTACGATCGAGTAATGGTGTATAAATTCCATGATGACGAACATGGAGAAGTTGTAGCTGAATGCTGTCGATCGGACTTAGAACCATTTCTTGGCTTGCACTACCCAGCTACTGATATACCTCAAGCTTCAAGGTTCCTTTTTTTGAAGAATAAAGTTAGAATGATATGTGATTGTTTGGCACCTCCAGTTAAAGTGCTTCAAGACAGGAGATTGACTCAGCCATTAAGTCTATGTGGGTCTGCATTGAGGGCTCCTCATGGTTGTCATGCTCGGTATATGATGAATATGGGTTCCATTGCATCTCTTGTGATGTCTATTACGATCAATGAGAATGATAGTGAATCAGAGAATGATCAAGAAAAGGATAGAAAGTTGTGGGGTTTAGTAGTTTGCCATCACACAAGCCCTAGGTTTGTTCCATTTCCTTTGCGATATGCTTGTGAATTCTTGATTCAAGTATTTGGTATACAGATTAACAAAGAGGTGGAGTTGCAAGCTCAGTTGAAGGAAAAACACATATTGCGAATTCAAACAGTTCTTTGTGATATGCTGCTAAGAGATGCTCCGGTGGGGATTGTTACTCAATCTCCCAATATTATGGATCTTGTTAAGTGTGATGGTGCTGCCTTATATTTCAGAAAGAAATTTTGGTTACTTGGAGTCACCCCCACAGAGGCACAAATTAGAAATATAGCTGAATGGCTTCTCAAAGACCATAGTGGAAGCACAGGTTTAAGTACTGATAGCCTCATTGAAGCTGGTTTCTATAGTGCTTCTGCACTTGGTGATGAGGTTTGTGGAATGGCTGCTGTTAGGATCACGTCTAAGGACTTCCTTTTCTGGTTTCGGTCACATATGGCTAAAGAAATAAGGTGGGGTGGTGCAAAACATGATCCTGGTGATGAGGATGATGGAAGAATGATGCATCCGAGATCATCATTCAAGACTTTCCTGGAAGTGGTGAAGCGACGTAGTCAACCTTGGGAAGATGTGGAAATGGATGCCATCCATTCACTGCAATTAATATTACGAGGTTCTTTACAGGATGAAATTGAAGAAGAATGCAAGGTGATTACAAACGTCCCATTCCCACCAGTTGATGAGAAGACACAACAGTTGGATGAATTGCGCGTCATCACCAATGAGATGGTTCGCCTAATTGAGACGGCTGCAGTGCCCATCTTGGCTGTAGATGTCTTTGGCAAGATCAATGGTTGGAACTCCAAAGCCACTGAGCTTACAGGATTGGCTATCCAGGAAGCCATTGGCATGCCCTTAGTTGATTGTCTGGTGAATGGTTCTGTTAAGGTGGTAAAGAAAATGCTGTCCTTGGCCATTCAAGGTATTGAAGAGAAGAACATTGAAATCAAACTCAAAACATTTGGAATTCCAGGACAGAATGGTCCGGTGATCTTAGAAGTTAACTCGTGTTGTAGCCGAGACCTAAACAATAATGTTGTAGGAATTTCTTTTATAGGGCAGGATGTTACGAAGCAGAAACAGGTAATGAACCAATACACCCAAATCCAAGGCGATTACACGGGGATTATGCGGAACCCATCTGCACTTATTCCTCCAATTTTTATGACCGATAGCGATGGCCGGTGCTTGGAATGGAATGATGCAATGGAAAAGTTATCTGGTTTTAGAAGGGTAGAGATGACAAATAGGATGCTTCTTGGGGAGGTTTTCACGCTTGAAAACTTTGGCTGCCGTGTGAAAGATCACACATTGACCAAGCTTAGGATAATACTGCATAGAGTAATTTCAGGCCAGGATGCAGAGAAATTTTTGTTTAGGTTCTGTGATCGTGAAGGAAATTATGTTGAAACGTTACTCACTGCAAGCAAAAGGACTGATGCAGAGGGTAATATCACTGGGGTTTTCTTCTTCTTGCACGTGGCTAGTCCAGAACTTCAATATGCTTTGGAGATGCAGCGGATTTCAGAACAAGCTACAGCTGAAAATCTCCATAAATTGGCATATCTACGTCAAGAAATCCGAAAACCCCTCGATGGGATTACATTTATGCAGAATTTAATGAGTTCATCTGACTTGAGCAAAGAGCAAATGCGGCTACTTAAATTGAACACTTCGAGTCGGGAACAATTACACAAGATTGTTCATGATACTGATATCCAGAGTATTGAGGAATGTTTCATGGAAACAAACTGTAGCGAATTCAACCTTGGAGATGTTCTTGATGTCGTAACAAATCAAAACATGATTTTCAGCCAAGAGCGTGGGGTGAAGATCATTTGTGAATCACCTACTGACTTGTCATCTCTGCACTTATATGGAGATAACATAAGGCTACAGCAGGTGTTCTCTGAGTTCTTGACTAACACACTTCTCTTCACTTGCAAAGAATCATCAGTTGTCTTTAAAGCAACTCCAAGGAAGGAACGCATTGGGAAGGGAATCCACATTGTTCATCTTGAATTGAGGATCACCCATCCCGCTCCGGGAATTCCTCCACACTTAATCCGCGAGATGTTCGATGACAACAATGATAGCTCAAAGGAAGGTCTTGGCTTATACATAAGTCAGAAGCTTGTGAAGATCATGAATGGCACTGTACAGTATCTTCGAGAGGCCGAAACCTCGTCATTCATCATCCTCATAGAATTCCCCTTGGTAGAGCATATTGTCAAATGA 3366 41.89 MSSTSTNKTVCSKTSCDRSKHGVHVVAQTPIDAKLHVDFEGSERFFDYSASVDFNAACSTSNVHVSTVQSYLQNIQRGSLVQPFGCMIAVDGENLSVLAYSENAPEMLDLAPHAVPNIEQQEALTFGTDVRTLFRSPGAAALQKAADFKEVNLLNPILVHCKTSGKPFYAILHRIDVGLIIDLEPVNPADVPVTAAGALKSYKLAAKAISKLQSLPSGNISLLCEVLVKEVSDLTGYDRVMVYKFHDDEHGEVVAECCRSDLEPFLGLHYPATDIPQASRFLFLKNKVRMICDCLAPPVKVLQDRRLTQPLSLCGSALRAPHGCHARYMMNMGSIASLVMSITINENDSESENDQEKDRKLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGIQINKEVELQAQLKEKHILRIQTVLCDMLLRDAPVGIVTQSPNIMDLVKCDGAALYFRKKFWLLGVTPTEAQIRNIAEWLLKDHSGSTGLSTDSLIEAGFYSASALGDEVCGMAAVRITSKDFLFWFRSHMAKEIRWGGAKHDPGDEDDGRMMHPRSSFKTFLEVVKRRSQPWEDVEMDAIHSLQLILRGSLQDEIEEECKVITNVPFPPVDEKTQQLDELRVITNEMVRLIETAAVPILAVDVFGKINGWNSKATELTGLAIQEAIGMPLVDCLVNGSVKVVKKMLSLAIQGIEEKNIEIKLKTFGIPGQNGPVILEVNSCCSRDLNNNVVGISFIGQDVTKQKQVMNQYTQIQGDYTGIMRNPSALIPPIFMTDSDGRCLEWNDAMEKLSGFRRVEMTNRMLLGEVFTLENFGCRVKDHTLTKLRIILHRVISGQDAEKFLFRFCDREGNYVETLLTASKRTDAEGNITGVFFFLHVASPELQYALEMQRISEQATAENLHKLAYLRQEIRKPLDGITFMQNLMSSSDLSKEQMRLLKLNTSSREQLHKIVHDTDIQSIEECFMETNCSEFNLGDVLDVVTNQNMIFSQERGVKIICESPTDLSSLHLYGDNIRLQQVFSEFLTNTLLFTCKESSVVFKATPRKERIGKGIHIVHLELRITHPAPGIPPHLIREMFDDNNDSSKEGLGLYISQKLVKIMNGTVQYLREAETSSFIILIEFPLVEHIVK 1121
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
11 22083090 22089308 + Lsi11G013450.1 Lsi11g01345 674512

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi11g01345 1121 Gene3D PAS domain 761 872 - -
Lsi11g01345 1121 Gene3D - 403 576 IPR043150 -
Lsi11g01345 1121 PANTHER PHYTOCHROME C 1 1117 - -
Lsi11g01345 1121 CDD PAS 759 869 IPR000014 -
Lsi11g01345 1121 PANTHER TWO-COMPONENT HISTIDINE KINASE 1 1117 - -
Lsi11g01345 1121 Pfam PAS fold 618 732 IPR013767 GO:0006355
Lsi11g01345 1121 Pfam PAS fold 758 869 IPR013767 GO:0006355
Lsi11g01345 1121 Pfam GAF domain 220 398 IPR003018 GO:0005515
Lsi11g01345 1121 PIRSF Phytochrome_conventional 2 1121 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Lsi11g01345 1121 Gene3D - 933 1109 IPR036890 -
Lsi11g01345 1121 SUPERFAMILY GAF domain-like 199 395 - -
Lsi11g01345 1121 ProSiteProfiles PAS repeat profile. 615 685 IPR000014 -
Lsi11g01345 1121 SUPERFAMILY PYP-like sensor domain (PAS domain) 75 188 IPR035965 -
Lsi11g01345 1121 SMART pas_2 747 817 IPR000014 -
Lsi11g01345 1121 SMART pas_2 617 683 IPR000014 -
Lsi11g01345 1121 SMART gaf_1 219 408 IPR003018 GO:0005515
Lsi11g01345 1121 SUPERFAMILY PYP-like sensor domain (PAS domain) 622 737 IPR035965 -
Lsi11g01345 1121 ProSitePatterns Phytochrome chromophore attachment site signature. 319 328 IPR013516 -
Lsi11g01345 1121 Pfam PAS fold 71 186 IPR013654 GO:0006355
Lsi11g01345 1121 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 219 388 IPR016132 -
Lsi11g01345 1121 Gene3D PAS domain 603 747 - -
Lsi11g01345 1121 CDD PAS 626 732 IPR000014 -
Lsi11g01345 1121 SUPERFAMILY PYP-like sensor domain (PAS domain) 762 866 IPR035965 -
Lsi11g01345 1121 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1003 1109 IPR003594 -
Lsi11g01345 1121 ProSiteProfiles PAS repeat profile. 748 800 IPR000014 -
Lsi11g01345 1121 TIGRFAM sensory_box: PAS domain S-box protein 762 868 IPR000014 -
Lsi11g01345 1121 TIGRFAM sensory_box: PAS domain S-box protein 622 738 IPR000014 -
Lsi11g01345 1121 SMART HKATPase_4 1003 1117 IPR003594 -
Lsi11g01345 1121 Gene3D PAS domain 74 322 - -
Lsi11g01345 1121 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 960 1111 IPR036890 -
Lsi11g01345 1121 Gene3D - 200 559 IPR029016 -
Lsi11g01345 1121 Pfam Phytochrome region 411 585 IPR013515 GO:0006355|GO:0009584
Lsi11g01345 1121 PRINTS Phytochrome signature 618 634 IPR001294 GO:0006355|GO:0009584
Lsi11g01345 1121 PRINTS Phytochrome signature 319 340 IPR001294 GO:0006355|GO:0009584
Lsi11g01345 1121 PRINTS Phytochrome signature 234 253 IPR001294 GO:0006355|GO:0009584
Lsi11g01345 1121 PRINTS Phytochrome signature 134 156 IPR001294 GO:0006355|GO:0009584
Lsi11g01345 1121 PRINTS Phytochrome signature 546 564 IPR001294 GO:0006355|GO:0009584
Lsi11g01345 1121 PRINTS Phytochrome signature 428 448 IPR001294 GO:0006355|GO:0009584
Lsi11g01345 1121 PRINTS Phytochrome signature 730 750 IPR001294 GO:0006355|GO:0009584
Lsi11g01345 1121 PRINTS Phytochrome signature 637 652 IPR001294 GO:0006355|GO:0009584
Lsi11g01345 1121 PRINTS Phytochrome signature 513 532 IPR001294 GO:0006355|GO:0009584
Lsi11g01345 1121 PRINTS Phytochrome signature 710 727 IPR001294 GO:0006355|GO:0009584
Lsi11g01345 1121 ProSiteProfiles Histidine kinase domain profile. 898 1117 IPR005467 -
Lsi11g01345 1121 SUPERFAMILY GAF domain-like 406 586 - -
Lsi11g01345 1121 CDD HATPase_Phy-like 1002 1113 IPR044767 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi11g01345 - - - csv:101211915 2100.09
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi08g00755 Lsi-Chr8:15879561 Lsi11g01345 Lsi-Chr11:22083090 0 dispersed
Lsi08g00758 Lsi-Chr8:15922089 Lsi11g01345 Lsi-Chr11:22083090 2.14E-83 dispersed
Lsi11g01345 Lsi-Chr11:22083090 Lsi04g01364 Lsi-Chr4:21402488 1.27E-06 dispersed
Lsi11g01345 Lsi-Chr11:22083090 Lsi10g00055 Lsi-Chr10:939481 6.68E-06 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
Vvi12g703 Blo02g00140 Blo15g00444 . . . . . . . Cmo19g00869 . . . . Sed05g2128 Cpe15g00685 . Bhi05g01475 Tan02g0490 Cmetu01g1663 Lac12g0396 . . . Cla02g00291 Cam02g0302 Cec02g0302 Cco02g0306 Clacu02g0294 Cmu02g0290 Cre02g0625 . . Cone8ag1368 Cone12ag1314 . Csa07g00253 . Cme01g00552 . . . . . . . . . . . . Cma19g00854 . Car19g00664 . . . . . . . . . . . . . . . . Lsi11g01345 . Chy01g00529 .
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi07g01094 . 30 1319 Histidine Kinase Gene Family AT2G17820 59.8 0.0e+00 1375.9
Lsi09g00708 CCT 175 1195 Histidine Kinase Gene Family AT2G01830 68.3 0.0e+00 1301.2
Lsi11g00010 . 18 923 Histidine Kinase Gene Family AT2G01830 65.2 0.0e+00 1187.9
Lsi09g01720 . 58 1018 Histidine Kinase Gene Family AT2G01830 53.0 6.3e-272 934.1
Lsi10g00055 . 304 1282 Histidine Kinase Gene Family AT2G01830 51.4 2.7e-267 918.7
Lsi04g01364 . 1 992 Histidine Kinase Gene Family AT5G10720 57.6 7.9e-295 1010.0
Lsi08g00755 . 1 1120 Histidine Kinase Gene Family AT1G09570 79.9 0.0e+00 1830.5
Lsi11g01345 . 18 1112 Histidine Kinase Gene Family AT1G09570 55.1 0.0e+00 1214.1
Lsi05g01420 . 34 1120 Histidine Kinase Gene Family AT1G09570 54.8 0.0e+00 1199.5
Lsi08g00758 . 3 377 Histidine Kinase Gene Family AT1G09570 62.6 1.3e-142 504.6
Lsi05g01420 . 13 1061 Histidine Kinase Gene Family AT2G18790 79.2 0.0e+00 1676.8
Lsi02g00857 . 31 1051 Histidine Kinase Gene Family AT2G18790 60.4 0.0e+00 1238.0
Lsi08g00755 . 9 1054 Histidine Kinase Gene Family AT2G18790 52.9 0.0e+00 1087.8
Lsi11g01345 . 26 1069 Histidine Kinase Gene Family AT2G18790 52.5 0.0e+00 1079.3
Lsi11g01345 . 12 1116 Histidine Kinase Gene Family AT5G35840 61.5 0.0e+00 1363.6
Lsi05g01420 . 21 1122 Histidine Kinase Gene Family AT5G35840 53.0 0.0e+00 1153.7
Lsi08g00755 . 9 1114 Histidine Kinase Gene Family AT5G35840 51.7 0.0e+00 1115.5
Lsi05g01420 . 3 1122 Histidine Kinase Gene Family AT4G16250 75.9 0.0e+00 1716.4
Lsi02g00857 . 32 1113 Histidine Kinase Gene Family AT4G16250 58.6 0.0e+00 1281.9
Lsi08g00755 . 8 1115 Histidine Kinase Gene Family AT4G16250 52.6 0.0e+00 1132.9
Lsi11g01345 . 26 1115 Histidine Kinase Gene Family AT4G16250 52.6 0.0e+00 1121.3
Lsi02g00857 . 15 1129 Histidine Kinase Gene Family AT4G18130 62.6 0.0e+00 1372.5
Lsi05g01420 . 38 1120 Histidine Kinase Gene Family AT4G18130 59.0 0.0e+00 1271.9
       

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
OG0005493 1 2 2 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 1 1 1 1 1 1 1 1 1 2 7 1 40
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi11g01345 Lsi_Chr11 FPKM 1.271649 1.393116 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0