Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Chy12g00013 ATGGCGGCCTTTTCTTCTTCTGCCGACAGCAATACTAGGGCTCCTCCTCCTCCTACCACTAGTACCGACAACAGACTTGCTGCACTTGTTCAATACAATGCTGATGCTGGTCTTTTGAACAAGTTTGAGCTTTCCGATGCTTCTGGTGAGTCTTTTAACTATTCAAGATCAGTTCTTGAAGCTCCTGTCTCTGTTCCTGAAGAACAAATTACTGCCTATTTGTCTAAGATTCAGAGAGGTGGTTTGGTTCAACCATTTGGTTGTTTGCTTGCTATTGAAGAATCTAGTTTTAAGATTATTAGTTTTAGTGAGAATTGTTTTGAATTACTGGGCCTTAATGATGATCAATTTGGGTCGGCACAGGGGAAGAAGGGTCTGATTGGGGTTGATATGAGAGCTCTATTTACGCCTTCCTCTGGGGCTTCTTTGGCCAAAGCGGCTTCTTCCAGGGAGATTTCGCTGTTGAACCCTGTTTGGGTTTATTCTAGGACTACCCAGAAGCCGTTTTATGCTATATTGCATAGAATTGATGTGGGGATTGTCATTGATTTGGAGCCTGCACGGTCTGTTGATCCTGCATTGTCGCTTGCTGGTGCTGTACAGTCACAAAAACTCGCGGTTAGAGCGATTTCCAGGTTGCAGGCTCTACCTAGTGGTGATATCGGTATTCTATGTGATACGGTTGTCGAAGATATTCAAAAACTTACCGGGTATGATAGAGTGATGGTGTATAAGTTCCATGATGACGAACATGGTGAAGTAGTGTCAGAAATCAGAAGGTCTGACTTAGAGCCATACCTTGGTTTGCATTATCCTGCCATTGATATACCTCAAGCAGCTCGTTTTTTGTTCAAGCAGAACCGCATTAGGATGATTTGTGATTGCAATGCGAAGCCGGTGCCGGTCATTCAAAGTGATGATCTAAAGCAGCCTCTTTGTTTGGTAAATTCAACACTAAGATCACCACATAGCTGTCATTTGCAATACATGGCAAATATGAGTACCTTATCTTCATTAGCAATGGCAATAGTCATGAACAGTGATGACTCACCAACAAGGCTATGGGGTCTGGTAGTGTGTCACCATACTTCTCCTCGATATGTCCCTTTCCCACTTCGTTATGCCTGCGAGTTTCTCATGCAGGCGTTCGGGCTGCAGCTTTACATGGAACTTCAATTGGCATCACAATTAATAGAGAAAAAGATCCTCAAGACACAAACTTTACTTTGTGACATGCTTCTCCGAGGCTCTCCATGTGCATTGCTGACTCGGTCTCCTAGTATAATGGATCTCGTGAAGTGTGATGGTGCTGCATTGTACTATAAGGGGGCATGCTATTTATTAGGTATAACTCCAACTGAAGCACAAGTAAAAGATCTTGCAGAGTGGATACTCAATAATCATGGGGATTCTACAGGGCTGAGCACGGATAGTTTGGCTGATGCTGGCTATCCTGAAGCTGCTTCACTAGGTGATGCAGTGTGCGGTATGGCAACTGCAAGAATCACTTCAAAGGATTTCTTATTCTGGTTCAGATCCCATGTTGCAAAGGAAATTCAATGGGGAGGAGCCAAGCATCATCCAGACGATAAGGACGATAGTGGAAGAATGCATCCGAGATCATCATTTAAAGCATTTCTTGAAGTTGCCAAGAGTAAAAGTTTGTCTTGGGAAGTTCAAGAAATAAATGCCATTCACTCATTGCAGCTAATAATGAGGGAGTCTTTTCCAAACACAGGGGACAGTAATTCAAAGGCAGAAAATTCTCCCCAGTTGAGTGATGCTGAGATGCAGGATATCAATGAACTCAGTTCAGTAGCTTGTGAAATGGTTAGGTTGATTGAAACAGCAACGGTTCCAATATTTGGGGTTGACTCAACTGGTTTGATCAATGGATGGAATGCTAAAATTTCTGAACTTGTGGGATTACATACTGGAGAAGCTCTGGGGAAATCTCTGGTTAATGAGATTGTTCATGAAGATTCACGTGGAACTGCCGAAGATTTACTTTCCTGTGCTCTGCAAGGTAAGGAAGACAAAAATGTGGAGTTAAAACTGAGAAGTTTTCGAACTGATAAAGAACACCCTAACGTGTATATTGTAGTTAACGCTTGCACAAGTAGAGATTACACAAACAAAGTTGTTGGAATTTGCTTTGTTGGGCAAGATCTTACATCCGAGAAAGGTGTGATGGATAAATTTATCCGTCTGCAGGGAGATTATAAGACTATTATTGAAAGTCTGAGCCCATTGATTCCTCCAATGTTTGTTTCAGATGAGAATGGTTACTGTTGTGAATGGACTGCAGCCATGGAAAAGCTTACTGGTTGGAGGAAAAATGAAGTTGTAGGAAAAATGCTAGCTGGGGAGATCTTTGGGAATTTCTGTAGATTGAAAGGTCTAGATACCCTCACTAGGTTCATGATTCTATTATATCAAGGCATTAGTGGTCAAGTAACCGAAAAGTTTCCATTAGGATTTTTCAATAAGGATGGGAATTATGTAGATGTGCTGTTAACATCGAACAAGAGAACTGATGCCGAAGGAAATGCCATTGGTTGTATCTGCTTCCTGCAAATTGTTCAGCCCAACTTACATGGGGTCTTGGAAGGACTTGGGACGGGTGATAGGGAGGCCATTCTGCAGCATAAGGAGTTGAGCTTCTTAAAGCATGAGGTGAAAAATCCTTTAAATGGCCTCAGATTTATGCATGAACTCCTTGTAAACTCTGGCATTACCGAAAACCAGAAACTTTTCCTTGATACTAGTGATGCATGCGAGAGACAAATCATGACAATCATAGAGGATATGGACTTCAGAAGTTTAGAAGGGGGCCAAGTAGAGATCAACAGACAAGACTTTCTCCTTGGGAGTGTTCTGGATGCCATTATCTGTCAAATCATGATTGTTGTCAAAGAGAGGAACATTCAACTTTTTCATGAAATTCCAGAAGAAATCAAAACGTTAACTCTTTGCGGCGACCAAATTAAGCTTCAGATGGTTTTATCAGATTTCTTACTTAACATAGTGCAGTATGCGCCTGTTCTGGATGGTTGGGTTGAAATCAAAATTTCTTCTGGTTTGAAGCTTATACAAGATGGAAATGAGCACATTCACTTGCAGATCAGAATGTCACATCCAGGTCAAGGTTTGCCTCATGAACTAATCCAAGATATGGTTGGAGGAGGACAACAGTGGACTTCAGAACAAGGCCTGGCCCTAAACCTGTCACGCAGACTTCTTAATAAATTGAACGGTAATGTCCGCTATGTTAGAGAGCAAACCAAATGCTACTTCCTCATCGACCTCGAACTCAAGTTAAGGCGCTCGAGGGGGTCAACAGAAGCTACTACGAGCCAAAGGACTTGA 3369 42.12 MAAFSSSADSNTRAPPPPTTSTDNRLAALVQYNADAGLLNKFELSDASGESFNYSRSVLEAPVSVPEEQITAYLSKIQRGGLVQPFGCLLAIEESSFKIISFSENCFELLGLNDDQFGSAQGKKGLIGVDMRALFTPSSGASLAKAASSREISLLNPVWVYSRTTQKPFYAILHRIDVGIVIDLEPARSVDPALSLAGAVQSQKLAVRAISRLQALPSGDIGILCDTVVEDIQKLTGYDRVMVYKFHDDEHGEVVSEIRRSDLEPYLGLHYPAIDIPQAARFLFKQNRIRMICDCNAKPVPVIQSDDLKQPLCLVNSTLRSPHSCHLQYMANMSTLSSLAMAIVMNSDDSPTRLWGLVVCHHTSPRYVPFPLRYACEFLMQAFGLQLYMELQLASQLIEKKILKTQTLLCDMLLRGSPCALLTRSPSIMDLVKCDGAALYYKGACYLLGITPTEAQVKDLAEWILNNHGDSTGLSTDSLADAGYPEAASLGDAVCGMATARITSKDFLFWFRSHVAKEIQWGGAKHHPDDKDDSGRMHPRSSFKAFLEVAKSKSLSWEVQEINAIHSLQLIMRESFPNTGDSNSKAENSPQLSDAEMQDINELSSVACEMVRLIETATVPIFGVDSTGLINGWNAKISELVGLHTGEALGKSLVNEIVHEDSRGTAEDLLSCALQGKEDKNVELKLRSFRTDKEHPNVYIVVNACTSRDYTNKVVGICFVGQDLTSEKGVMDKFIRLQGDYKTIIESLSPLIPPMFVSDENGYCCEWTAAMEKLTGWRKNEVVGKMLAGEIFGNFCRLKGLDTLTRFMILLYQGISGQVTEKFPLGFFNKDGNYVDVLLTSNKRTDAEGNAIGCICFLQIVQPNLHGVLEGLGTGDREAILQHKELSFLKHEVKNPLNGLRFMHELLVNSGITENQKLFLDTSDACERQIMTIIEDMDFRSLEGGQVEINRQDFLLGSVLDAIICQIMIVVKERNIQLFHEIPEEIKTLTLCGDQIKLQMVLSDFLLNIVQYAPVLDGWVEIKISSGLKLIQDGNEHIHLQIRMSHPGQGLPHELIQDMVGGGQQWTSEQGLALNLSRRLLNKLNGNVRYVREQTKCYFLIDLELKLRRSRGSTEATTSQRT* 1123
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
12 176102 187033 + Chy12G206130.1 Chy12g00013 237794

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Chy12g00013 1122 Gene3D - 923 1099 IPR036890 -
Chy12g00013 1122 PRINTS Phytochrome signature 135 157 IPR001294 GO:0006355|GO:0009584
Chy12g00013 1122 PRINTS Phytochrome signature 702 719 IPR001294 GO:0006355|GO:0009584
Chy12g00013 1122 PRINTS Phytochrome signature 628 643 IPR001294 GO:0006355|GO:0009584
Chy12g00013 1122 PRINTS Phytochrome signature 235 254 IPR001294 GO:0006355|GO:0009584
Chy12g00013 1122 PRINTS Phytochrome signature 421 441 IPR001294 GO:0006355|GO:0009584
Chy12g00013 1122 PRINTS Phytochrome signature 722 742 IPR001294 GO:0006355|GO:0009584
Chy12g00013 1122 PRINTS Phytochrome signature 609 625 IPR001294 GO:0006355|GO:0009584
Chy12g00013 1122 PRINTS Phytochrome signature 320 341 IPR001294 GO:0006355|GO:0009584
Chy12g00013 1122 PRINTS Phytochrome signature 506 525 IPR001294 GO:0006355|GO:0009584
Chy12g00013 1122 PRINTS Phytochrome signature 539 557 IPR001294 GO:0006355|GO:0009584
Chy12g00013 1122 Gene3D PAS domain 754 864 - -
Chy12g00013 1122 PANTHER PHYTOCHROME E 26 1111 - -
Chy12g00013 1122 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 946 1103 IPR036890 -
Chy12g00013 1122 MobiDBLite consensus disorder prediction 1 23 - -
Chy12g00013 1122 Gene3D - 201 552 IPR029016 -
Chy12g00013 1122 Gene3D PAS domain 76 323 - -
Chy12g00013 1122 SMART HisKA_10 881 945 IPR003661 GO:0000155|GO:0007165
Chy12g00013 1122 CDD PAS 617 724 IPR000014 -
Chy12g00013 1122 ProSiteProfiles Histidine kinase domain profile. 888 1107 IPR005467 -
Chy12g00013 1122 CDD HisKA 886 941 IPR003661 GO:0000155|GO:0007165
Chy12g00013 1122 Pfam PAS fold 72 187 IPR013654 GO:0006355
Chy12g00013 1122 SUPERFAMILY PYP-like sensor domain (PAS domain) 754 856 IPR035965 -
Chy12g00013 1122 SUPERFAMILY PYP-like sensor domain (PAS domain) 612 720 IPR035965 -
Chy12g00013 1122 SUPERFAMILY GAF domain-like 399 576 - -
Chy12g00013 1122 Pfam Phytochrome region 404 576 IPR013515 GO:0006355|GO:0009584
Chy12g00013 1122 TIGRFAM sensory_box: PAS domain S-box protein 613 728 IPR000014 -
Chy12g00013 1122 Pfam GAF domain 222 391 IPR003018 GO:0005515
Chy12g00013 1122 Gene3D - 396 569 IPR043150 -
Chy12g00013 1122 Pfam PAS fold 609 723 IPR013767 GO:0006355
Chy12g00013 1122 Pfam PAS fold 740 859 IPR013767 GO:0006355
Chy12g00013 1122 PANTHER TWO-COMPONENT HISTIDINE KINASE 26 1111 - -
Chy12g00013 1122 SUPERFAMILY PYP-like sensor domain (PAS domain) 77 188 IPR035965 -
Chy12g00013 1122 SUPERFAMILY GAF domain-like 200 387 - -
Chy12g00013 1122 ProSiteProfiles PAS repeat profile. 740 792 IPR000014 -
Chy12g00013 1122 Gene3D PAS domain 607 738 - -
Chy12g00013 1122 ProSitePatterns Phytochrome chromophore attachment site signature. 320 329 IPR013516 -
Chy12g00013 1122 SMART gaf_1 220 401 IPR003018 GO:0005515
Chy12g00013 1122 PIRSF Phytochrome_conventional 5 1115 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Chy12g00013 1122 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 220 381 IPR016132 -
Chy12g00013 1122 CDD HATPase_Phy-like 993 1105 IPR044767 -
Chy12g00013 1122 Pfam His Kinase A (phospho-acceptor) domain 886 945 IPR003661 GO:0000155|GO:0007165
Chy12g00013 1122 CDD PAS 751 859 IPR000014 -
Chy12g00013 1122 SMART pas_2 739 809 IPR000014 -
Chy12g00013 1122 SMART pas_2 608 675 IPR000014 -
Chy12g00013 1122 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 993 1103 IPR003594 -
Chy12g00013 1122 ProSiteProfiles PAS repeat profile. 606 677 IPR000014 -
Chy12g00013 1122 SMART HKATPase_4 993 1105 IPR003594 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Chy12g00013 K12123 PHYE; phytochrome E - csv:101214900 2203.71
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Chy06g00756 Chy-Chr6:5211189 Chy12g00013 Chy-Chr12:176102 0 dispersed
Chy12g00013 Chy-Chr12:176102 Chy10g00085 Chy-Chr10:2159657 1.73E-07 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
Vvi10g343 . . . . . . Bma14g00963 Bma01g01487 . Cmo18g00427 . . . . . Cpe09g00775 . . . . . . . . . . . . . . . . . . . . . Chy12g00013 . . . . . Bpe02g00962 . . . Sed01g2202 . . Cma13g00567 Cma18g00452 Car13g00449 Car18g00423 . Cpe20g00493 Bhi08g02111 Tan05g2567 Cmetu12g0178 Lac10g1014 Hepe07g1806 . . Cla03g00672 Cam03g0721 Cec03g0697 Cco03g0733 Clacu03g0719 Cmu03g1310 Cre03g1005 Lsi02g00857 Csa01g02269 . Cme12g01234
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Chy06g02240 . 5 1196 Histidine Kinase Gene Family AT2G17820 65.3 0.0e+00 1457.2
Chy10g00085 . 20 1004 Histidine Kinase Gene Family AT2G01830 71.7 0.0e+00 1350.9
Chy11g01787 . 58 1002 Histidine Kinase Gene Family AT2G01830 53.3 2.9e-274 941.8
Chy11g00704 . 304 1259 Histidine Kinase Gene Family AT2G01830 52.1 2.2e-269 925.6
Chy07g00300 . 1 995 Histidine Kinase Gene Family AT5G10720 57.3 3.3e-290 994.6
Chy03g00986 . 35 1154 Histidine Kinase Gene Family AT1G09570 79.7 0.0e+00 1822.4
Chy03g00990 . 3 1144 Histidine Kinase Gene Family AT1G09570 71.1 0.0e+00 1617.4
Chy06g00756 . 34 1121 Histidine Kinase Gene Family AT1G09570 54.6 0.0e+00 1192.9
Chy01g00529 . 18 952 Histidine Kinase Gene Family AT1G09570 57.0 0.0e+00 1082.8
Chy06g00756 . 13 1062 Histidine Kinase Gene Family AT2G18790 78.8 0.0e+00 1665.6
Chy12g00013 . 21 1043 Histidine Kinase Gene Family AT2G18790 59.6 0.0e+00 1239.9
Chy03g00986 . 55 1088 Histidine Kinase Gene Family AT2G18790 53.2 0.0e+00 1085.9
Chy03g00990 . 22 1077 Histidine Kinase Gene Family AT2G18790 50.9 1.8e-306 1048.9
Chy01g00529 . 26 952 Histidine Kinase Gene Family AT2G18790 56.0 8.2e-299 1023.5
Chy01g00529 . 18 954 Histidine Kinase Gene Family AT5G35840 64.1 0.0e+00 1223.8
Chy06g00756 . 21 1123 Histidine Kinase Gene Family AT5G35840 53.1 0.0e+00 1150.2
Chy03g00986 . 43 1148 Histidine Kinase Gene Family AT5G35840 51.7 0.0e+00 1114.4
Chy01g00528 . 1 160 Histidine Kinase Gene Family AT5G35840 52.4 9.3e-37 152.9
Chy06g00756 . 3 1123 Histidine Kinase Gene Family AT4G16250 75.9 0.0e+00 1712.2
Chy12g00013 . 22 1105 Histidine Kinase Gene Family AT4G16250 57.7 0.0e+00 1283.5
Chy03g00986 . 42 1149 Histidine Kinase Gene Family AT4G16250 52.7 0.0e+00 1137.9
Chy01g00529 . 26 952 Histidine Kinase Gene Family AT4G16250 54.4 1.2e-292 1003.0
Chy12g00013 . 31 1119 Histidine Kinase Gene Family AT4G18130 63.2 0.0e+00 1375.5
Chy06g00756 . 38 1121 Histidine Kinase Gene Family AT4G18130 58.9 0.0e+00 1271.5
Chy01g00529 . 27 952 Histidine Kinase Gene Family AT4G18130 50.1 3.2e-255 878.6
       

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
OG0009148 1 1 1 2 1 1 2 1 1 1 1 1 2 1 1 1 1 0 2 1 1 1 1 1 1 1 1 2 1 1 34
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Chy12g00013 Chy_Chr12 FPKM 1.475 3.719797 0.0 1.091629 4.216913 5.436009 4.412776 1.990712 1.787347 3.070562