Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa07g00253 ATGTCTTCAACGTCAACAAACAAGACTGTGTGTTCCAAGACCAGCTTTGACCGATCGAAACATGGGGCTCATGTGGTTGCGCAGACCCCAATTGATGCAAAGCTTCATGTAGACTTTGAAGGTTCGGAAAGGTTGTTCGATTACTCTGCATCGGTTGATTTCAATGCCGCTTGTTCCACTAGCAATGTTCATGCTTCCACTGTACAGTCATACCTTCTAAACATTCAGAGAGGAAGTCTAGTTCAACCATTTGGTTGTATGATTGCTGTGGACGGGGAAAACTTGTCTGTTCTTGCATATAGTGAAAATGCTCCCGAAATGTTGGACTTGGCCCCACACGCTGTGCCTAACATCGAGCAGCAAGAAGCTTTAACTTTTGGAACAGATGTACGAACTCTTTTTCGTTCACCCGGAGCTGCAGCTTTGCAGAAAGCAGCTGACTTTAAGGAAGTTAATCTTCTCAATCCTATTCTAGTCCATTGTAGAACTTCTGGTAAACCGTTTTATGCAATTTTGCATCGAGTAGACGTGGGATTAATTATAGATCTGGAACCGGTGAACCCAGCTGATGTGCCAGTGACTGCAGCTGGGGCATTGAAATCTTATAAGCTAGCAGCCAAAGCCATCTCAAAATTGCAGAACTTGCAAAGTGGGAATATATCTCTTTTGTGTGAGGTATTGGTTAAGGAGGTTAGCGATTTGACAGGTTATGATCGAGTAATGGTGTATAAATTCCACGATGATGAACATGGAGAAGTTGTAGCTGAGTGCTGTCGATCAGACTTAGAACCATATTTTGGCTTGCACTACCCAGCTACTGATATACCTCAAGCTTCAAGGTTCCTGTTTTTGAAGAATAAAGTTAGAATGATATGTGATTGTTTGGCACCTCCGGTTAAAGTGCTTCAAGACAGGAGATTAGCTCAGCCATTAAGTTTATGTGGGTCTGCATTGAGGGCTCCCCATGGTTGTCATGCTCGATATATGATGAATATGGGTTCTATTGCATCTCTTGTGATGTCTATTACGATCAATGAGAATGATAGTGAATCAGAAAATGATCAAGAAAAGGATAGAAAATTGTGGGGTTTAGTAGTTTGCCATCACACCAGCCCTAGGTTTGTTCCATTTCCTTTGCGATATGCTTGTGAATTCTTGATTCAAGTATTTGGTATACAGATTAACAAAGAGGTGGAGTTGCAAGCTCAGTTGAAGGAAAAACACATCTTGCGAATTCAAACAGTTCTTTGTGATATGCTGCTAAGAGATGCTCCGGTAGGAATTGTTACTCAATCTCCTAATATTATGGATCTTGTTAAGTGTGATGGTGCTGCCTTATATTTCAGAAAGAAATTTTGGTCACTTGGAGTCACCCCCACAGAGGCGCAAATTAGAAATATAGCTGACTGGCTTCTCAAAGACCATAGTGGAAGCACAGGTTTAAGTACTGATAGCCTTACTGAAGCTGGTTTCTATGGTGCTTCTGCGCTTGGTGATGAGATTTGTGGAATGGCTGCTGTTAGGATCACATCTAAGGACTTCCTTTTCTGGTTTCGGTCACATATGGCTAAGGAAATCAGGTGGGGTGGTGCAAAACATGATCCTAGTGATGAGGATGATGGAAGAAAGATGCATCCAAGATCATCATTCAAGGCTTTCCTGGAAGTGGTGAAGCGGCGTAGTCAACCTTGGGAAGATGTGGAAATGGATGCCATTCATTCACTGCAATTAATCTTACGAGGTTCTTTACAGGATGAAATTGAAGAAGAATGCAAGGTGATTACAACTGTCCCACCAGTTGATGAGAAGACGCAACAATTGGATGAATTGCGCGTCATTACAAATGAGATGGTTCGCCTAATTGAAACAGCTGCAGTGCCCATCTTGGCTGTAGATGTCTTTGGCAAGATCAATGGGTGGAACTCCAAAGCCACTGAGCTTACAGGATTGGCCATCCAGGAAGCCATTGGCATGCCCTTAGTTGATTGTGTGGTGAATGATTCTGTTAAGGTGGTAAAGAAAATGCTTTCCCTGGCCATTCAAGGCATTGAAGAGAAGAACGTTGAAATCAAACTCAAAACATTTGGAACTGCGGTACAAAATGGTCCAGTGATCTTAGAAGTTAACTCATGTTGTAGCCGAGACTTAAACAATAATGTTGTAGGAATTTCTTTTATAGGGCAGGATGTAACGAAGCAAAAACTGGTAATGAACCAATACACCCAAATCCAAGGTGATTACACAGGGATTATGCGAAACCCATCTGCACTTATTCCTCCAATTTTTATGGCCGATGGCGAGGGCCGGTGCTTGGAGTGGAATGATGCAATGGAAAAGTTATCTGGTTTTAGAAGGGTAGAGATGACAAATAGGATGCTTCTTGGGGAGGTTTTCACGCTTGAAAACTTCGGATGCCGTGTGAAAGATCACACGTTGACCAAGCTTAGGATAATACTGCATAGAGTAATTTCAGGCCAGGATACAGAGAAATTTTTGTTTCGGTTCTGTGATCGTGAAGGAAACTACGTCGAATCATTGCTTACTGCAAGCAAAAGGACTGATACAGAGGGTACTGTCACTGGGGTTTTCTTCTTCTTGCACGTGGCTAGTCCAGAGCTTCAATATGCTTTGGAGATGCAGCGGATTTCCGAACAAGCTACAGCGGAAAATCTCCATAAATTGGCATATCTGCGTCAAGAAATTCGAAAACCCCTTGATGGGATTGCACTTATGCAGAATCTAATAAGTTCATCTGACTTAAGCATAGAGCAAAAACAGCTAATTAAATTGAACACTTTGAGTCGAGAACAATTACACAAGATTGTACATGATACTGATATCCAGAGTATTGAGGAATGTTACATGGAAACAAACTGTAGTGAATTCAACCTTGGAGATGTTCTTGATGTTGTAACGAATCAAACCATGACGTTGAGCCAAGAGCGTGAGGTGAAGATCATTTGTGAATCACTTGCCGATGTGTCATCTCTGCACTTATATGGAGATAACTTGAGGCTACAGCAAGTGCTCTCTGAGTTCTTGACGAACACGCTTCTCTTCACTTGCAAAGAATCGTCTGTCATCTTTAAAGCAACTCCAAGGAAGGAGCGCATTGGGAAGGGAATCCACATTGTTCATCTTGAATTGAGGATCACCCATCCCACTCCAGGAATTCCTGCACACTTAATCCAAGAGATGTTCGACGACAACAACGATAGCTCAAAGGAAGGTCTTGGCTTATACATAAGCCAGAAGCTTGTGAAGATCATGAATGGCACTGTACAGTATCTTCGAGAGGCCGAAACCTCGTCATTCATCATCCTCATAGAATTCCCCTTAGTAGAGCATGTTGCTAGATGA 3360 42.29 MSSTSTNKTVCSKTSFDRSKHGAHVVAQTPIDAKLHVDFEGSERLFDYSASVDFNAACSTSNVHASTVQSYLLNIQRGSLVQPFGCMIAVDGENLSVLAYSENAPEMLDLAPHAVPNIEQQEALTFGTDVRTLFRSPGAAALQKAADFKEVNLLNPILVHCRTSGKPFYAILHRVDVGLIIDLEPVNPADVPVTAAGALKSYKLAAKAISKLQNLQSGNISLLCEVLVKEVSDLTGYDRVMVYKFHDDEHGEVVAECCRSDLEPYFGLHYPATDIPQASRFLFLKNKVRMICDCLAPPVKVLQDRRLAQPLSLCGSALRAPHGCHARYMMNMGSIASLVMSITINENDSESENDQEKDRKLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGIQINKEVELQAQLKEKHILRIQTVLCDMLLRDAPVGIVTQSPNIMDLVKCDGAALYFRKKFWSLGVTPTEAQIRNIADWLLKDHSGSTGLSTDSLTEAGFYGASALGDEICGMAAVRITSKDFLFWFRSHMAKEIRWGGAKHDPSDEDDGRKMHPRSSFKAFLEVVKRRSQPWEDVEMDAIHSLQLILRGSLQDEIEEECKVITTVPPVDEKTQQLDELRVITNEMVRLIETAAVPILAVDVFGKINGWNSKATELTGLAIQEAIGMPLVDCVVNDSVKVVKKMLSLAIQGIEEKNVEIKLKTFGTAVQNGPVILEVNSCCSRDLNNNVVGISFIGQDVTKQKLVMNQYTQIQGDYTGIMRNPSALIPPIFMADGEGRCLEWNDAMEKLSGFRRVEMTNRMLLGEVFTLENFGCRVKDHTLTKLRIILHRVISGQDTEKFLFRFCDREGNYVESLLTASKRTDTEGTVTGVFFFLHVASPELQYALEMQRISEQATAENLHKLAYLRQEIRKPLDGIALMQNLISSSDLSIEQKQLIKLNTLSREQLHKIVHDTDIQSIEECYMETNCSEFNLGDVLDVVTNQTMTLSQEREVKIICESLADVSSLHLYGDNLRLQQVLSEFLTNTLLFTCKESSVIFKATPRKERIGKGIHIVHLELRITHPTPGIPAHLIQEMFDDNNDSSKEGLGLYISQKLVKIMNGTVQYLREAETSSFIILIEFPLVEHVAR* 1120
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
7 1981713 1987819 + CsaV3_7G002530.1 Csa07g00253 535816

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa07g00253 1119 Pfam PAS fold 756 867 IPR013767 GO:0006355
Csa07g00253 1119 Pfam PAS fold 616 730 IPR013767 GO:0006355
Csa07g00253 1119 SMART HKATPase_4 1001 1115 IPR003594 -
Csa07g00253 1119 Pfam Phytochrome region 411 585 IPR013515 GO:0006355|GO:0009584
Csa07g00253 1119 ProSiteProfiles PAS repeat profile. 613 683 IPR000014 -
Csa07g00253 1119 SUPERFAMILY PYP-like sensor domain (PAS domain) 760 864 IPR035965 -
Csa07g00253 1119 Pfam GAF domain 220 398 IPR003018 GO:0005515
Csa07g00253 1119 Gene3D - 200 559 IPR029016 -
Csa07g00253 1119 Gene3D PAS domain 75 322 - -
Csa07g00253 1119 PIRSF Phytochrome_conventional 2 1119 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Csa07g00253 1119 SUPERFAMILY GAF domain-like 406 586 - -
Csa07g00253 1119 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 958 1109 IPR036890 -
Csa07g00253 1119 ProSitePatterns Phytochrome chromophore attachment site signature. 319 328 IPR013516 -
Csa07g00253 1119 SUPERFAMILY PYP-like sensor domain (PAS domain) 622 733 IPR035965 -
Csa07g00253 1119 Gene3D - 934 1107 IPR036890 -
Csa07g00253 1119 CDD PAS 757 867 IPR000014 -
Csa07g00253 1119 Gene3D PAS domain 601 744 - -
Csa07g00253 1119 SMART gaf_1 219 408 IPR003018 GO:0005515
Csa07g00253 1119 ProSiteProfiles PAS repeat profile. 746 798 IPR000014 -
Csa07g00253 1119 SUPERFAMILY GAF domain-like 199 395 - -
Csa07g00253 1119 PANTHER PHYTOCHROME C 1 1115 - -
Csa07g00253 1119 TIGRFAM sensory_box: PAS domain S-box protein 620 734 IPR000014 -
Csa07g00253 1119 TIGRFAM sensory_box: PAS domain S-box protein 760 866 IPR000014 -
Csa07g00253 1119 Gene3D - 403 576 IPR043150 -
Csa07g00253 1119 Gene3D PAS domain 759 870 - -
Csa07g00253 1119 CDD HATPase_Phy-like 1000 1111 IPR044767 -
Csa07g00253 1119 SUPERFAMILY PYP-like sensor domain (PAS domain) 75 188 IPR035965 -
Csa07g00253 1119 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1001 1107 IPR003594 -
Csa07g00253 1119 PRINTS Phytochrome signature 134 156 IPR001294 GO:0006355|GO:0009584
Csa07g00253 1119 PRINTS Phytochrome signature 234 253 IPR001294 GO:0006355|GO:0009584
Csa07g00253 1119 PRINTS Phytochrome signature 319 340 IPR001294 GO:0006355|GO:0009584
Csa07g00253 1119 PRINTS Phytochrome signature 428 448 IPR001294 GO:0006355|GO:0009584
Csa07g00253 1119 PRINTS Phytochrome signature 513 532 IPR001294 GO:0006355|GO:0009584
Csa07g00253 1119 PRINTS Phytochrome signature 546 564 IPR001294 GO:0006355|GO:0009584
Csa07g00253 1119 PRINTS Phytochrome signature 616 632 IPR001294 GO:0006355|GO:0009584
Csa07g00253 1119 PRINTS Phytochrome signature 635 650 IPR001294 GO:0006355|GO:0009584
Csa07g00253 1119 PRINTS Phytochrome signature 708 725 IPR001294 GO:0006355|GO:0009584
Csa07g00253 1119 PRINTS Phytochrome signature 728 748 IPR001294 GO:0006355|GO:0009584
Csa07g00253 1119 Pfam PAS fold 71 186 IPR013654 GO:0006355
Csa07g00253 1119 SMART pas_2 615 681 IPR000014 -
Csa07g00253 1119 SMART pas_2 745 815 IPR000014 -
Csa07g00253 1119 CDD PAS 624 730 IPR000014 -
Csa07g00253 1119 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 219 388 IPR016132 -
Csa07g00253 1119 PANTHER TWO-COMPONENT HISTIDINE KINASE 1 1115 - -
Csa07g00253 1119 ProSiteProfiles Histidine kinase domain profile. 896 1115 IPR005467 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa07g00253 - - - csv:101211915 2187.53
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa03g01519 Csa-Chr3:11284430 Csa07g00253 Csa-Chr7:1981713 0 dispersed
Csa06g02220 Csa-Chr6:20015890 Csa07g00253 Csa-Chr7:1981713 0 dispersed
Csa06g02224 Csa-Chr6:20046075 Csa07g00253 Csa-Chr7:1981713 0 dispersed
Csa07g00253 Csa-Chr7:1981713 Csa02g00710 Csa-Chr2:5766703 8.89E-08 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
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
Csa03g00070 . 5 1187 Histidine Kinase Gene Family AT2G17820 65.2 0.0e+00 1443.3
Csa05g01966 CCT 24 987 Histidine Kinase Gene Family AT2G01830 72.1 0.0e+00 1332.8
Csa05g00994 CCT 3 953 Histidine Kinase Gene Family AT2G01830 72.3 0.0e+00 1307.0
Csa06g00827 . 58 1002 Histidine Kinase Gene Family AT2G01830 53.5 3.1e-276 948.3
Csa06g00945 . 304 1259 Histidine Kinase Gene Family AT2G01830 51.8 3.1e-268 921.8
Csa04g02603 . 1 993 Histidine Kinase Gene Family AT5G10720 57.5 1.5e-290 995.7
Csa06g02224 . 1 1120 Histidine Kinase Gene Family AT1G09570 80.1 0.0e+00 1832.0
Csa06g02220 . 3 1145 Histidine Kinase Gene Family AT1G09570 71.1 0.0e+00 1620.5
Csa07g00253 . 18 1110 Histidine Kinase Gene Family AT1G09570 55.3 0.0e+00 1214.9
Csa03g01519 . 34 1121 Histidine Kinase Gene Family AT1G09570 54.7 0.0e+00 1196.4
Csa03g01519 . 13 1062 Histidine Kinase Gene Family AT2G18790 78.9 0.0e+00 1670.6
Csa01g02269 . 9 925 Histidine Kinase Gene Family AT2G18790 61.4 0.0e+00 1155.2
Csa06g02224 . 21 1054 Histidine Kinase Gene Family AT2G18790 53.3 0.0e+00 1087.0
Csa07g00253 . 26 1067 Histidine Kinase Gene Family AT2G18790 52.2 1.0e-313 1072.8
Csa06g02220 . 22 1049 Histidine Kinase Gene Family AT2G18790 52.1 4.3e-308 1054.3
Csa07g00253 . 18 1114 Histidine Kinase Gene Family AT5G35840 62.4 0.0e+00 1373.2
Csa03g01519 . 21 1123 Histidine Kinase Gene Family AT5G35840 53.3 0.0e+00 1153.3
Csa06g02224 . 9 1114 Histidine Kinase Gene Family AT5G35840 51.8 0.0e+00 1117.8
Csa03g01519 . 3 1123 Histidine Kinase Gene Family AT4G16250 76.0 0.0e+00 1715.3
Csa01g02269 . 9 987 Histidine Kinase Gene Family AT4G16250 58.7 0.0e+00 1192.2
Csa06g02224 . 8 1115 Histidine Kinase Gene Family AT4G16250 52.6 0.0e+00 1136.7
Csa07g00253 . 26 1113 Histidine Kinase Gene Family AT4G16250 52.0 0.0e+00 1114.8
Csa01g02269 . 6 988 Histidine Kinase Gene Family AT4G18130 65.2 0.0e+00 1287.3
Csa03g01519 . 38 1121 Histidine Kinase Gene Family AT4G18130 58.9 0.0e+00 1273.8
       

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
Csa07g00253 Csa_Chr07 FPKM 10.80946 13.202981 3.848833 3.600184 7.280992 7.045453 9.040998 5.255291 4.471538 6.176412