Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Chy03g00986 ATGGTATATCTGTTGCGTGTACCTTGTACTGGATGTGAATTGAAGATGGGAATGTTCCTTTTGACCTTAACCCAACAAAGAATTAAAAAAGGTTGGAAAAACATGTCTTCCTCTAGACCTAGCCAGTCTTCTAGCAACTCTGGGCGGTCGAGACATAGCACCAGAATTATTGCTCAAACATCTGTTGATGCGAAACTCCATGCTGATTTTGAGGAATCTGGGAATTCATTCGACTACTCAAGTTCAGTGCGTGTCTCTAGTGACGTTAGTGGAGATCACCAACCTAGGTCAGACAAAGTTACAACAGCTTATCTCCACCATATACAGAAAGGGAAGCTTATCCAACCATTTGGTTGCTTATTGGCCTTAGATGAAAAAACATTCAAGGTTATTGCATATAGTGAAAATGCCCCTGAAATGTTGACCATGGTCAGTCATGCTGTCCCAAGCATGGGGGATTACCCTGTTCTTGGCATAGGGACAGATGTGAGAACTATTTTCACTGCACCTAGTGCTTCGGCACTGTTGAAGGCCTTGGGCTTTGGGGAGGTTACACTTCTTAATCCCATCCTAGTGCATTGCAAGACTTCTGGAAAACCCTTTTATGCAATTGTGCATCGTGTTACTGGAAGCTTAATCATTGACTTTGAGCCTGTGAAGCCTTATGAAGTTCCAGTAACAGCAGCTGGAGCCCTACAATCATATAAACTTGCAGCCAAAGCAATTACTAGATTGCAGTCCTTGCCTAGTGGGTGCATGGCTAGGCTTTGTGACACAATGGTTCAAGAAGTTTTTGAACTAACTGGTTATGATAGAGTCATGGCTTATAAATTCCATGATGATGATCATGGGGAAGTGATCTCTGAAGTCACAAAGCCTGGTCTTGAGCCATATCTTGGTTTGCATTATCCGGCCACTGACATTCCTCAAGCTGCACGCTTTTTGTTCATGAAAAATAAGGTCCGCATGATTGTTGATTGTCGTGCAAAACATTTAAAAGTGCTCCAAGATGAAAAATTACAGTTTGATCTAACTTTATGCGGATCAACATTAAGGGCTCCACACAGTTGCCACTTACAGTATATGGAAAACATGAACTCAATAGCCTCTTTGGTTATGGCAGTTGTGGTTAATGAAGGGGATGAAGATGCCGAGGGCCCTGCTTTGCAGCAACAAAAGAGAAAGAGACTATGGGGGTTAGTAGTATGTCATAATACAAGTCCCAGATTTGTTCCTTTTCCTCTTAGGTATGCTTGTGAGTTTCTTGCTCAAGTATTTGCTATTCACGTGAACAAGGAATTGGAGTTGGAAAATCAAATTATAGAGAAAAATATTCTGCGTACACAGACACTCTTGTGCGACATGCTAATGCGCGATGCTCCTTTAGGTATTGTGTCAAGGAGTCCTAACATAATGGATCTTGTGAAATCTGATGGGGCTGCCTTGTTATATAAGAACAAAATTTGGCGATTGGGCATGACACCCAACGACTTCCATTTGCGAGACATTGCCTCATGGCTTGCCGAATATCATATGGATTCAACAGGGTTGAGTACTGACAGCTTGTATGATGCAGGATATCCTGGAGCTCTTGCTTTAGGTGATGAAGTATGTGGGATGGCTGCCGTGCGGATAACTACTAATGATATGATTTTTTGGTTTCGGTCTCACACTGCTTTGGAGATTCGGTGGGGTGGAGCAAAGCATGAACATGGTGAGAAGGATGATGGCAGAAAAATGCATCCAAGATCATCTTTCAAGGCTTTCCTTGAAGTAGTGAAAACAAGAAGTTTGCCTTGGAAGGACTACGAAATGGATGCAATCCACTCTTTACAACTGATCCTTCGAAATACTTTTAAAGATACAGATACAGATGAAATAAATCGAAAATCAATTCAAACGACACTTGGTGACCTTAAAATTGAAGGGAGGCAAGAATTGGAATCAGTAACAAGTGAAATGGTCAGGTTAATTGAGACAGCTACGGTGCCGATTTTAGCAGTTGATGTAGATGGGTTAATTAATGGGTGGAATACAAAGATTGCTGAATTGACTGGACTCCCTGTGGATAAAGCTATTGGCAAGCATTTGCTTACGTTAGTGGAAAATACTTCTGTAGAAGTTGTCAAGAAAATGTTGTATTTGGCATTGCAAGGACAAGAAGAGCAAAACGTTCAATTTGAAATCAAGACGCACGGTTCTCATATTGAGGTTGACTCGATCAGGCTTGTTGTAAATGCTTGTGCAAGTAGGGACTTGCGTGAAAATGTTGTGGGGGTCTGTTTTGTAGCACAAGATATCACTGGTCAGAAGATGGTTATGGACAAGTTCACTCGATTAGAAGGTGATTACAAAGCTATTGTACAAAATCCCAATCCATTGATCCCTCCAATATTTGGTTCAGATCAATTTGGATGGTGCTCAGAATGGAATGCTGCAATGACAAAATTAACTGGGTGGTCACGTGAAGAAGTAATTGATAAGATGCTTTTAGGAGAGGTATTTGGCGCTCACAAGTCATGTTGTCGTTTAAAGAATCAAGAAGCTTTTGTTAATCTTGGGGTTGTTTTGAACAATGCCATGAGTGGTCAAGATCCTGAAAAGGTTTCTTTTGGCTTCTTTGGTCGGAACGGGATGTACGTGGAATGTCTTCTATGTGTCAATAAGATCTTGGATAAGGATGGGGTGGTTACTGGGGTTTTTTGCTTTCTGCAGCTTGCTAGTCATGAGTTGCAACAAGCACTAAATATCCAACGATTATGTGAGCAGACTGCTTTGAAGAGATTGAGAGCATTGGGGTACATAAAAAGACACATACAAAATCCTCTTTCTGGGATAATCTTTTCGAGAAGATTATTGGAACGTACCGATTTGGGAACAGAACAGAGGGAAATTCTGCTTACTAGCTTACACTGTCAAAAGCAAATCTCCAAGGTTCTGGAAGAGTCTGACCTTGATCAAATTATTGACGGGTTTATTGATCTGGAAATGGTCGAGTTTACATTGCATGAAGTATTGAAGGTATCAATCAGTCAAGTGATGATAAAGAGCAAAGGAAAGGCTATCCAGATAGTTAATGAGACTGTAGAAGAGGCCATGTCCGAGACCTTATATGGTGATAGTTTGAGGCTTCAACAAGTCTTGGCAGATTTTCTATTGCTATCAGTTAGTTATGCGCCAGCAGGAGGCCAACTGAAAATTTCAACCAACTTGACCAAGGATCAATTAGGAAAGTCGGTTCATCTCGTGCATTTGGAATTCAGGATAACGTATGCTGGAGGCGGTATACCCGAATCGTTGCTGAACGAGATGTTTGGTAGCGAGGAGGAGGCTTCTGAGGAGGGTTTTAGTCTACTCATCAGTAGAAAACTAGTGAAGCTAATGAATGGAGATGTAAGATACATGAGGGAAGCAGGTAAGTCAAGCTTCATCATAACTGTTGAGCTTGCTGCTGCACACAAGGCAAGTATGTAG 3474 41.45 MVYLLRVPCTGCELKMGMFLLTLTQQRIKKGWKNMSSSRPSQSSSNSGRSRHSTRIIAQTSVDAKLHADFEESGNSFDYSSSVRVSSDVSGDHQPRSDKVTTAYLHHIQKGKLIQPFGCLLALDEKTFKVIAYSENAPEMLTMVSHAVPSMGDYPVLGIGTDVRTIFTAPSASALLKALGFGEVTLLNPILVHCKTSGKPFYAIVHRVTGSLIIDFEPVKPYEVPVTAAGALQSYKLAAKAITRLQSLPSGCMARLCDTMVQEVFELTGYDRVMAYKFHDDDHGEVISEVTKPGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRAKHLKVLQDEKLQFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNEGDEDAEGPALQQQKRKRLWGLVVCHNTSPRFVPFPLRYACEFLAQVFAIHVNKELELENQIIEKNILRTQTLLCDMLMRDAPLGIVSRSPNIMDLVKSDGAALLYKNKIWRLGMTPNDFHLRDIASWLAEYHMDSTGLSTDSLYDAGYPGALALGDEVCGMAAVRITTNDMIFWFRSHTALEIRWGGAKHEHGEKDDGRKMHPRSSFKAFLEVVKTRSLPWKDYEMDAIHSLQLILRNTFKDTDTDEINRKSIQTTLGDLKIEGRQELESVTSEMVRLIETATVPILAVDVDGLINGWNTKIAELTGLPVDKAIGKHLLTLVENTSVEVVKKMLYLALQGQEEQNVQFEIKTHGSHIEVDSIRLVVNACASRDLRENVVGVCFVAQDITGQKMVMDKFTRLEGDYKAIVQNPNPLIPPIFGSDQFGWCSEWNAAMTKLTGWSREEVIDKMLLGEVFGAHKSCCRLKNQEAFVNLGVVLNNAMSGQDPEKVSFGFFGRNGMYVECLLCVNKILDKDGVVTGVFCFLQLASHELQQALNIQRLCEQTALKRLRALGYIKRHIQNPLSGIIFSRRLLERTDLGTEQREILLTSLHCQKQISKVLEESDLDQIIDGFIDLEMVEFTLHEVLKVSISQVMIKSKGKAIQIVNETVEEAMSETLYGDSLRLQQVLADFLLLSVSYAPAGGQLKISTNLTKDQLGKSVHLVHLEFRITYAGGGIPESLLNEMFGSEEEASEEGFSLLISRKLVKLMNGDVRYMREAGKSSFIITVELAAAHKASM* 1158
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
3 13388886 13394823 - Chy3G059660.1 Chy03g00986 223147

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Chy03g00986 1157 Coils Coil 431 451 - -
Chy03g00986 1157 TIGRFAM sensory_box: PAS domain S-box protein 657 773 IPR000014 -
Chy03g00986 1157 PANTHER TWO-COMPONENT HISTIDINE KINASE 35 1153 - -
Chy03g00986 1157 Gene3D - 439 612 IPR043150 -
Chy03g00986 1157 SUPERFAMILY PYP-like sensor domain (PAS domain) 656 763 IPR035965 -
Chy03g00986 1157 Pfam PAS fold 653 767 IPR013767 GO:0006355
Chy03g00986 1157 Pfam PAS fold 783 905 IPR013767 GO:0006355
Chy03g00986 1157 PRINTS Phytochrome signature 549 568 IPR001294 GO:0006355|GO:0009584
Chy03g00986 1157 PRINTS Phytochrome signature 352 373 IPR001294 GO:0006355|GO:0009584
Chy03g00986 1157 PRINTS Phytochrome signature 464 484 IPR001294 GO:0006355|GO:0009584
Chy03g00986 1157 PRINTS Phytochrome signature 267 286 IPR001294 GO:0006355|GO:0009584
Chy03g00986 1157 PRINTS Phytochrome signature 582 600 IPR001294 GO:0006355|GO:0009584
Chy03g00986 1157 PRINTS Phytochrome signature 745 762 IPR001294 GO:0006355|GO:0009584
Chy03g00986 1157 PRINTS Phytochrome signature 167 189 IPR001294 GO:0006355|GO:0009584
Chy03g00986 1157 PRINTS Phytochrome signature 672 687 IPR001294 GO:0006355|GO:0009584
Chy03g00986 1157 PRINTS Phytochrome signature 653 669 IPR001294 GO:0006355|GO:0009584
Chy03g00986 1157 PRINTS Phytochrome signature 765 785 IPR001294 GO:0006355|GO:0009584
Chy03g00986 1157 Pfam Phytochrome region 447 621 IPR013515 GO:0006355|GO:0009584
Chy03g00986 1157 SUPERFAMILY PYP-like sensor domain (PAS domain) 797 903 IPR035965 -
Chy03g00986 1157 Pfam GAF domain 255 434 IPR003018 GO:0005515
Chy03g00986 1157 ProSitePatterns Phytochrome chromophore attachment site signature. 352 361 IPR013516 -
Chy03g00986 1157 PANTHER PHYTOCHROME A 35 1153 - -
Chy03g00986 1157 SMART gaf_1 252 444 IPR003018 GO:0005515
Chy03g00986 1157 Pfam PAS fold 103 219 IPR013654 GO:0006355
Chy03g00986 1157 SMART HisKA_10 927 988 IPR003661 GO:0000155|GO:0007165
Chy03g00986 1157 Gene3D - 233 595 IPR029016 -
Chy03g00986 1157 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 988 1146 IPR036890 -
Chy03g00986 1157 SMART pas_2 782 851 IPR000014 -
Chy03g00986 1157 SMART pas_2 652 718 IPR000014 -
Chy03g00986 1157 Gene3D PAS domain 108 355 - -
Chy03g00986 1157 SUPERFAMILY GAF domain-like 232 431 - -
Chy03g00986 1157 CDD PAS 794 905 IPR000014 -
Chy03g00986 1157 ProSiteProfiles PAS repeat profile. 650 720 IPR000014 -
Chy03g00986 1157 CDD PAS 661 767 IPR000014 -
Chy03g00986 1157 Gene3D - 990 1155 IPR036890 -
Chy03g00986 1157 SMART HKATPase_4 1039 1151 IPR003594 -
Chy03g00986 1157 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 252 424 IPR016132 -
Chy03g00986 1157 SUPERFAMILY PYP-like sensor domain (PAS domain) 108 220 IPR035965 -
Chy03g00986 1157 Gene3D PAS domain 645 782 - -
Chy03g00986 1157 PIRSF Phytochrome_conventional 33 1157 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Chy03g00986 1157 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1039 1149 IPR003594 -
Chy03g00986 1157 ProSiteProfiles PAS repeat profile. 783 835 IPR000014 -
Chy03g00986 1157 ProSiteProfiles Histidine kinase domain profile. 934 1153 IPR005467 -
Chy03g00986 1157 Gene3D PAS domain 797 911 - -
Chy03g00986 1157 MobiDBLite consensus disorder prediction 31 53 - -
Chy03g00986 1157 SUPERFAMILY GAF domain-like 442 619 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Chy03g00986 K12120 PHYA; phytochrome A - csv:101208491 2175.21
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Chy01g00529 Chy-Chr1:3758734 Chy03g00986 Chy-Chr3:13388886 0 dispersed
Chy03g00986 Chy-Chr3:13388886 Chy06g00756 Chy-Chr6:5211189 0 dispersed
Chy03g00986 Chy-Chr3:13388886 Chy03g00990 Chy-Chr3:13429003 0 proximal
       

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
OG0002826 1 3 1 1 1 2 2 2 3 2 2 2 2 2 2 2 2 2 2 2 2 1 2 2 2 2 1 3 2 1 56
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Chy03g00986 Chy_Chr03 FPKM 7.800926 8.179771 8.376305 9.328997 4.922613 4.890482 5.839581 12.607725 11.830619 11.892451