Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa06g02224 ATGTCTTCCTCTAGACCTAGCCAGTCTTCTAGCAACTCTGGCCGGTCAAGACATAGCACCAGAATAATTGCTCAAACATCTGTTGATGCGAAACTCCATGCTGATTTTGAGGAATCTGGGAATTCATTCGACTACTCAAGTTCAGTGCGTGTCTCTAGTGACGTTAGTGGAGATCACCAACCTAGGTCAGACAAAGTTACAACAGCTTATCTCCACCATATACAGAAAGGGAAACTTATCCAACCATTTGGTTGCTTATTGGCCTTAGATGAAAAAACATTCAAGGTTATTGCATATAGTGAAAATGCCCCTGAAATGTTGACCATGGTCAGTCATGCTGTCCCAAGCATGGGGGATTACCCTGTTCTTGGCATAGGGACAGATGTGAGGACTATTTTCACTGCACCTAGTGCTTCTGCACTGTTGAAGGCCTTGGGCTTTGGGGAGGTTACACTTCTTAATCCCATCCTGGTGCATTGCAAGACTTCTGGAAAACCCTTTTATGCAATTGTGCATCGTGTTACTGGAAGCTTAATCATTGACTTTGAGCCTGTGAAGCCTTATGAAGTCCCAGTAACAGCAGCTGGAGCCCTACAATCATATAAACTTGCAGCCAAAGCAATTACTAGATTGCAGTCCTTGCCTAGTGGGTGCATGGCTAGGCTTTGTGACACAATGGTTCAAGAAGTTTTTGAACTAACTGGTTATGATAGAGTCATGGCTTATAAATTCCATGATGATGATCATGGGGAAGTGATCTCTGAAGTCACAAAGCCTGGTCTTGAGCCGTATCTTGGTTTGCATTATCCGGCCACTGACATTCCTCAAGCTGCACGCTTTTTGTTCATGAAAAATAAGGTCCGCATGATTGTTGATTGTCGTGCAAAACATTTAAAAGTGCTCCAAGATGAAAAGTTACAGTTTGATCTAACTTTATGCGGATCAACATTAAGGGCTCCACACAGTTGCCACTTACAGTATATGGCAAACATGAACTCAATAGCCTCTTTGGTTATGGCAGTTGTGGTTAATGAAGGGGATGAAGATGCCGAGGGCCCTGCTTTGCAGCAACAAAAGAGAAAGAGACTATGGGGGTTAGTAGTATGTCATAATACAAGTCCCAGATTTGTTCCTTTTCCTCTTAGGTATGCTTGTGAGTTTCTTGCTCAAGTATTTGCTATTCACGTGAACAAGGAATTGGAGTTGGAAAATCAAATTATAGAGAAAAATATTCTGCGTACACAGACACTCTTATGCGACATGCTAATGCGTGATGCTCCTTTAGGTATTGTGTCAAGGAGTCCTAACATAATGGATCTTGTGAAATCTGATGGGGCTGCCTTGTTATATAAGAACAAAATTTGGCGATTGGGCATGACACCCAGCGACTTCCATTTGCGGGACATTGCCTCGTGGCTTGCCGAATATCATATGGATTCAACAGGGTTGAGTACTGACAGCTTGTATGATGCAGGATATCCTGGAGCTCTTGCTTTAGGTGATGAAGTATGTGGGATGGCTGCCGTGCGGATAACTACTAATGATATGATTTTTTGGTTTCGGTCTCACACTGCTTCAGAGATTCGGTGGGGTGGAGCAAAGCATGAACATGGTGAGAAGGACGATGGCAGAAAAATGCATCCAAGATCATCTTTCAAGGCTTTCCTTGAAGTAGTGAAAACAAGAAGTTTGCCTTGGAAGGACTACGAAATGGATGCAATCCACTCTTTACAACTGATCCTTAGAAATACTTTTAAAGATACAGATACAGATGAAATAAATCGAAAATCAATTCAAATGACACTTGGTGACCTTAAAATTGAAGGGAGGCAAGAATTGGAATCAGTAACAAGTGAAATGGTCAGGTTAATTGAGACAGCTACTGTGCCGATTTTAGCAGTTGATGTAGATGGGTTAATTAATGGGTGGAATACAAAGATTGCTGAATTGACTGGACTCCCTGTGGATAAAGCTATTGGCAAGCATTTGCTTACGTTAGTGGAAGATACTTCTGTAGAAGTTGTCAAGAAAATGTTGTATTTGGCATTGCAAGGACAAGAAGAGCAAAATGTTCAATTTGAAATCAAGACGCATGGTTCTCATATTGAGGTTGGCTCGATCAGGCTTGTTGTAAATGCTTGTGCAAGTAGGGACTTGCGTGAAAATGTTGTGGGGGTGTGTTTTGTAGCACAAGATATCACTGGTCAGAAGATGGTTATGGACAAGTTCACTCGATTAGAAGGTGATTACAAAGCTATTGTACAAAATCCCAATCCATTGATCCCTCCAATATTTGGTTCAGATCAATTTGGATGGTGCTCAGAATGGAATGCTGCAATGACAAAATTAACTGGGTGGTCACGGGAAGAAGTAATTGATAAGATGCTTTTAGGAGAGGTATTTGGTGCTCACAAGTCATGTTGTCGTTTAAAGAATCAAGAAGCTTTTGTTAATCTTGGGGTTGTTTTGAACAATGCCATGAGTGGTCAAGATCCTGAGAAGGTTTCCTTTGGCTTCTTTGGTCGGAACGGGATGTACGTGGAATGTCTTCTATGTGTCAATAAGATCTTGGATAAGGATGGGGTGGTTACAGGAGTTTTTTGCTTTCTGCAGCTTGCTAGTCATGAGTTGCAACAAGCACTAAATATCCAACGATTATGTGAGCAGACTGCTTTGAAGAGATTGAGAGCATTGGGATACATAAAAAGACACATACAAAATCCTCTTTCTGGGATAATCTTTTCGAGAAGATTATTGGAACGTACCGAGTTGGGAACAGAACAAAGGGAAATTCTGCTTACTAGCTTACACTGTCAAAAGCAAATCTCCAAGGTTCTGGAAGAGTCTGACCTTGATCAAATTATTGACGGGTTTATTGATCTGGAAATGGTCGAGTTTACATTGCATGAAGTATTGAAGGTATCAATCAGTCAAGTGATGATAAAGAGCAAAGGAAAGGCTATCCAGATAGTTAATGAGACTGTAGAAGAGGCCATGTCCGAGACCTTATATGGTGATAGTTTGAGGCTTCAACAAGTCTTGGCAGATTTTCTATTGCTATCAGTTAGTTATGCGCCTGCAGGAGGCCAACTGAAAATTTCAACCAACTTGACAAAGGATCAATTAGGAAAGTCGGTTCATCTCGTGCATTTGGAATTCAGGATAACGTATGCTGGAGGTGGTATACCCGAATCGTTGCTGAACGAGATGTTTGGTAGCGAGGAGGAGGCTTCTGAGGAGGGTTTTAGTCTACTCATCAGTAGAAAACTAGTGAAGCTAATGAATGGAGATGTAAGATACATGAGGGAAGCAGGTAAGTCAAGCTTCATCATAACTGTTGAGCTTGCTGCTGCACACAAGGCAAGTATGTAG 3372 41.61 MSSSRPSQSSSNSGRSRHSTRIIAQTSVDAKLHADFEESGNSFDYSSSVRVSSDVSGDHQPRSDKVTTAYLHHIQKGKLIQPFGCLLALDEKTFKVIAYSENAPEMLTMVSHAVPSMGDYPVLGIGTDVRTIFTAPSASALLKALGFGEVTLLNPILVHCKTSGKPFYAIVHRVTGSLIIDFEPVKPYEVPVTAAGALQSYKLAAKAITRLQSLPSGCMARLCDTMVQEVFELTGYDRVMAYKFHDDDHGEVISEVTKPGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRAKHLKVLQDEKLQFDLTLCGSTLRAPHSCHLQYMANMNSIASLVMAVVVNEGDEDAEGPALQQQKRKRLWGLVVCHNTSPRFVPFPLRYACEFLAQVFAIHVNKELELENQIIEKNILRTQTLLCDMLMRDAPLGIVSRSPNIMDLVKSDGAALLYKNKIWRLGMTPSDFHLRDIASWLAEYHMDSTGLSTDSLYDAGYPGALALGDEVCGMAAVRITTNDMIFWFRSHTASEIRWGGAKHEHGEKDDGRKMHPRSSFKAFLEVVKTRSLPWKDYEMDAIHSLQLILRNTFKDTDTDEINRKSIQMTLGDLKIEGRQELESVTSEMVRLIETATVPILAVDVDGLINGWNTKIAELTGLPVDKAIGKHLLTLVEDTSVEVVKKMLYLALQGQEEQNVQFEIKTHGSHIEVGSIRLVVNACASRDLRENVVGVCFVAQDITGQKMVMDKFTRLEGDYKAIVQNPNPLIPPIFGSDQFGWCSEWNAAMTKLTGWSREEVIDKMLLGEVFGAHKSCCRLKNQEAFVNLGVVLNNAMSGQDPEKVSFGFFGRNGMYVECLLCVNKILDKDGVVTGVFCFLQLASHELQQALNIQRLCEQTALKRLRALGYIKRHIQNPLSGIIFSRRLLERTELGTEQREILLTSLHCQKQISKVLEESDLDQIIDGFIDLEMVEFTLHEVLKVSISQVMIKSKGKAIQIVNETVEEAMSETLYGDSLRLQQVLADFLLLSVSYAPAGGQLKISTNLTKDQLGKSVHLVHLEFRITYAGGGIPESLLNEMFGSEEEASEEGFSLLISRKLVKLMNGDVRYMREAGKSSFIITVELAAAHKASM* 1124
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 20046075 20053349 + CsaV3_6G036100.1 Csa06g02224 533851

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa06g02224 1123 TIGRFAM sensory_box: PAS domain S-box protein 623 739 IPR000014 -
Csa06g02224 1123 PIRSF Phytochrome_conventional 1 1123 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Csa06g02224 1123 SUPERFAMILY PYP-like sensor domain (PAS domain) 622 729 IPR035965 -
Csa06g02224 1123 SMART pas_2 618 684 IPR000014 -
Csa06g02224 1123 SMART pas_2 748 817 IPR000014 -
Csa06g02224 1123 Pfam PAS fold 69 185 IPR013654 GO:0006355
Csa06g02224 1123 SMART HKATPase_4 1005 1117 IPR003594 -
Csa06g02224 1123 Gene3D - 405 578 IPR043150 -
Csa06g02224 1123 MobiDBLite consensus disorder prediction 40 62 - -
Csa06g02224 1123 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1005 1115 IPR003594 -
Csa06g02224 1123 SMART HisKA_10 893 954 IPR003661 GO:0000155|GO:0007165
Csa06g02224 1123 ProSiteProfiles Histidine kinase domain profile. 900 1119 IPR005467 -
Csa06g02224 1123 SUPERFAMILY PYP-like sensor domain (PAS domain) 74 186 IPR035965 -
Csa06g02224 1123 PRINTS Phytochrome signature 133 155 IPR001294 GO:0006355|GO:0009584
Csa06g02224 1123 PRINTS Phytochrome signature 233 252 IPR001294 GO:0006355|GO:0009584
Csa06g02224 1123 PRINTS Phytochrome signature 318 339 IPR001294 GO:0006355|GO:0009584
Csa06g02224 1123 PRINTS Phytochrome signature 430 450 IPR001294 GO:0006355|GO:0009584
Csa06g02224 1123 PRINTS Phytochrome signature 515 534 IPR001294 GO:0006355|GO:0009584
Csa06g02224 1123 PRINTS Phytochrome signature 548 566 IPR001294 GO:0006355|GO:0009584
Csa06g02224 1123 PRINTS Phytochrome signature 619 635 IPR001294 GO:0006355|GO:0009584
Csa06g02224 1123 PRINTS Phytochrome signature 638 653 IPR001294 GO:0006355|GO:0009584
Csa06g02224 1123 PRINTS Phytochrome signature 711 728 IPR001294 GO:0006355|GO:0009584
Csa06g02224 1123 PRINTS Phytochrome signature 731 751 IPR001294 GO:0006355|GO:0009584
Csa06g02224 1123 SUPERFAMILY GAF domain-like 408 585 - -
Csa06g02224 1123 Gene3D PAS domain 763 877 - -
Csa06g02224 1123 SUPERFAMILY PYP-like sensor domain (PAS domain) 763 869 IPR035965 -
Csa06g02224 1123 MobiDBLite consensus disorder prediction 40 56 - -
Csa06g02224 1123 Pfam Phytochrome region 413 587 IPR013515 GO:0006355|GO:0009584
Csa06g02224 1123 Gene3D - 199 561 IPR029016 -
Csa06g02224 1123 Gene3D PAS domain 611 748 - -
Csa06g02224 1123 PANTHER TWO-COMPONENT HISTIDINE KINASE 1 1119 - -
Csa06g02224 1123 Pfam PAS fold 619 733 IPR013767 GO:0006355
Csa06g02224 1123 Pfam PAS fold 749 871 IPR013767 GO:0006355
Csa06g02224 1123 Pfam GAF domain 221 400 IPR003018 GO:0005515
Csa06g02224 1123 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 954 1112 IPR036890 -
Csa06g02224 1123 SUPERFAMILY GAF domain-like 198 397 - -
Csa06g02224 1123 MobiDBLite consensus disorder prediction 1 24 - -
Csa06g02224 1123 Coils Coil 397 417 - -
Csa06g02224 1123 ProSiteProfiles PAS repeat profile. 749 801 IPR000014 -
Csa06g02224 1123 CDD PAS 627 733 IPR000014 -
Csa06g02224 1123 CDD PAS 760 871 IPR000014 -
Csa06g02224 1123 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 218 390 IPR016132 -
Csa06g02224 1123 ProSiteProfiles PAS repeat profile. 616 686 IPR000014 -
Csa06g02224 1123 ProSitePatterns Phytochrome chromophore attachment site signature. 318 327 IPR013516 -
Csa06g02224 1123 PANTHER PHYTOCHROME A 1 1119 - -
Csa06g02224 1123 SMART gaf_1 218 410 IPR003018 GO:0005515
Csa06g02224 1123 Gene3D - 956 1121 IPR036890 -
Csa06g02224 1123 Gene3D PAS domain 74 321 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa06g02224 K12120 PHYA; phytochrome A - csv:101208491 2188.69
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa06g02224 Csa-Chr6:20046075 Csa07g00253 Csa-Chr7:1981713 0 dispersed
Csa06g02220 Csa-Chr6:20015890 Csa06g02224 Csa-Chr6:20046075 0 proximal
       

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
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