Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa06g02220 ATGTCATCAACAAGTAGACCAAGCCAAGCTTCCAGGAACACCGCAGGAGGATCCTCTTCTTCCTCACAATCAAGACACAGCTCCAGAATCCTCACTCAAACCTCCATAGATGCAAAGCTTCAATCCCACTTTGAGCAATCCGGTTCTTCCTTCGACTACTCCACGTCAATCCATCTCACCAACAACCCAACTGCCGCACCGCCTGCCACCACCACCACAGCATACCTTCAACAAATCCAAATATCCAACCTCATCCAACCCTTTGGCTGCCTCTTAGCCCTCCACCCCACCACCCTCAAACTCATTGCCTTCAGCCAAAATGCTCCCGAAATGCTCACCACCGTCGCTCACACCGTCCCTGACGGCGACAACCACCCCCTCCTCGCCATTGGCACCGACCTCCGAGGCATCTTCACCGCCCCCACTGCCACCGCCCTCCTCAAGGCCCTTGCCTTCCCCGACGTCACCCTCCTCAACCCTATTCTCGTCCACTCCAAGTCCTCAGGGAAGCCCTTTTACGCCATTCTCCATCGCGTCACCGGTAGCCTTATCATCGACTTTGAACCTCTCAAACCCGACCAAGTCCCCGTCACTGCTGCAGGAGCTCTTCAATCCTATAAGCTCGCGGCCAAAGCCATCACTCGTCTCCAGGCTCTCCCCAGTGGGAGCCTGGTTAGACTGTGTGACACTATGGTTCAAGAAGTGTTTGAGTTGACGGGTTACGATAGAGTGATGGCTTATAAGTTTCATGATGATGATCATGGAGAGGTTTTTTCCGAGGTTACAAAGCCTGGCCTCGAACCTTATCTTGGTTTGCATTATCCAGCCACTGACATTCCTCAGGCTGCAAGATTTTTGTTCATGAAGAACAAGGTTAGAATGATTGTGGATTGTAGAGCCAAACATGTGAAGGTCATTCAAGATCAAAATCTTGATTTTGATTTGACTTTGTGTGGCTCAACTTTAAGAGCTCCTCATTGTTGCCATTTGCAATATATGGAGAATATGGACTCTATTGCCTCATTGGTTATGGCCATTGTGGTAAATGAAGAAGAAGAAGAAGAGAATTTTGATCAAAGCAACAACAATGATGCTTCTTTGCAAAAACATAAGAGGAAAAGATTGTGGGGTTTGGTAGTTTGTCACAACACAACTCCTAGATTTGTCCCTTTCCCTCTTAGATATGCTTGTGAATTTCTAGCTCAAGTTTTTGCCATTCATGTCAACAAGGAATTGGAGTTAGAGAATCAAATTTTGGAGAAAAATATCTTGAGAACACAAACACTTTTATGTGACATGTTAATGCGTGATGCTCCTTTAGGGATTGTGTCAAGAACTCCTAATATAATGGATCTTGTCAAATCTGATGGAGCTGCATTATTGTACAATAACAAGGTATGGAGATTAGGGATAACCCCTACTGATTTTCATCTTCAAGATATTGCTTCGTGGATTTTGGAGTATCATATGGATTCCACTGGTTTGAGTACTGATAGCTTGTATGATGCCGGGTACCCCGGCGCGCTTGCACTTGGCGACGTGGTGTGTGGGATGGCTGCTGTGAGAATATCTTCCAACGACATGATTTTCTGGTTTCGATCGCACACTGCATCGGAGATTCGGTGGGGTGGGGCGAAGCATGAGCCGGGTGAGAAGGATGATGGAAGGAAAATGCATCCAAGATCATCTTTTAAGGCCTTTCTTGAAGTGGTTAAGACAAGGAGTTTGCCATGGAAGGACTTTGAAATGGATGCAATTCATTCTTTGCAACTTATACTAAGAAATACTTTTAAAGATAGAGATGATCATATGAGTGAGATTCATAGAAAATCAATACAAACAACACTCAGTGATCTTAAGATTCTTGATGGGAGGCAAGAATTGGAATCAGTAACAAGTGAGATGGTTAGGTTGATTGAAACAGCCACAGTTCCAATTTTGGCTGTTGATGTTGATGGGCTTGTGAATGGTTGGAACTCAAAAATTGCTGAATTGACTGGACTTTCGGTTGACAAAGCCATTGGCAAGAATTTGCTCACATTAGTGAAAGATTCTTCTGTTGAAATTGTCAAGAAGATGTTGGTCTTGGCATTGCAAGGTCAAGAGGAAAAAAACGTTCAATTCGAGATAAAAACACACAACGTGGACATCAATTCGGGCTCGATAAGCCTAATAGTAAATGCTTGTGCAAGCAAAGACTTAAGTGAAAATGTGGTGGGAGTATGCTTTGTAGCACAAGACATAACATGTCAAAAGATAGTAATGGACAAATTCACAAAACTACAAGGTGATTACAAAGCCATAGTACAAAACCCTAACCCACTAATCCCTCCAATATTTGGGTTGGATGAATTTGGTTGGTGCACAGAATGGAACTTAGCAATGACAAAACTAAGTGGATGGTCTCGTGAATCAGTTGTCAACAAAATGCTTTTAGGAGAAGTTTTTGGAACACAATTAAACAACTCGTCATCATGTTGTTGCCAACTCAAGAATCAAGAAGCATTTGTGAATCTTGGGATTGTGTTGAACAATGCAATGAGTGGACAAGATCCTGAAAAGAATATTTCATTTGGTTTTTATGGAAGAAATGGGATGTTTGTGGAATGTCTATTATGTGTCAATAAGATATTGGATAGAGATGGTGCAGTTATTGGGGTTTTTTGTTTCTTGCAACTTGCAAGTCAAGAATTGCAACAAGCTTTGAGTATTCAAAAATTGTGTGAGAGAACTGCTTCAAATAGGTTGAAGGCATTGGGATATATGAAGAGGCAGATTCAAAATCCACTGTGCGGGATTATTTTTTCAAGGAAAATGTTGCAACAAACTCAGTTGGGAGTGGAACAGAAGCAACTTTTGATCAATAGTGTTAATTGTCAAAGGCAAATCTCCAAGGTTCTTGACGAGTCTCATGATCTTGATCATATTATTCAAGGAGTGATTGAATTAGAAATGGTTGAGTTTTCATTATATGAAGTATTGGTAGTAGCAATAAGTCAAGTGATGATGAAGAGCAAAGGAAAAGGCATTCAAATAGAAAATGAAGTTGGAGAAGAGATAATGTGTGAGACATTATATGGAGACAATTTGAGAGTTCAGCAAATAATGGCTGATTTCTTGTTGATATCAGTTCATTATGCACCAACAGGTGGCCAACTTATGCTTTCAACAACTTTTACTAATAAGGATCATTTTAGGAACTCACTACATCTTCTTCATCTTGAATTCAGGATAACATATGTTGGAGGAGGCATACCAGAATCATTGTTGAATGAGATGTTTGGAAATGATAATATGGATCATGAGGATTCATCTGAAGAAGGTTATAGCCTGTTCATAAGTAGAAAACTTGTGAAGATGATGAATGGAGATGTGAGATATGTGAGAGAAGCTGCCAAATCAACCTTCATTATAACTCTCCAACTTGCTGCTGCTGCTCATAAGTAA 3447 41.54 MSSTSRPSQASRNTAGGSSSSSQSRHSSRILTQTSIDAKLQSHFEQSGSSFDYSTSIHLTNNPTAAPPATTTTAYLQQIQISNLIQPFGCLLALHPTTLKLIAFSQNAPEMLTTVAHTVPDGDNHPLLAIGTDLRGIFTAPTATALLKALAFPDVTLLNPILVHSKSSGKPFYAILHRVTGSLIIDFEPLKPDQVPVTAAGALQSYKLAAKAITRLQALPSGSLVRLCDTMVQEVFELTGYDRVMAYKFHDDDHGEVFSEVTKPGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRAKHVKVIQDQNLDFDLTLCGSTLRAPHCCHLQYMENMDSIASLVMAIVVNEEEEEENFDQSNNNDASLQKHKRKRLWGLVVCHNTTPRFVPFPLRYACEFLAQVFAIHVNKELELENQILEKNILRTQTLLCDMLMRDAPLGIVSRTPNIMDLVKSDGAALLYNNKVWRLGITPTDFHLQDIASWILEYHMDSTGLSTDSLYDAGYPGALALGDVVCGMAAVRISSNDMIFWFRSHTASEIRWGGAKHEPGEKDDGRKMHPRSSFKAFLEVVKTRSLPWKDFEMDAIHSLQLILRNTFKDRDDHMSEIHRKSIQTTLSDLKILDGRQELESVTSEMVRLIETATVPILAVDVDGLVNGWNSKIAELTGLSVDKAIGKNLLTLVKDSSVEIVKKMLVLALQGQEEKNVQFEIKTHNVDINSGSISLIVNACASKDLSENVVGVCFVAQDITCQKIVMDKFTKLQGDYKAIVQNPNPLIPPIFGLDEFGWCTEWNLAMTKLSGWSRESVVNKMLLGEVFGTQLNNSSSCCCQLKNQEAFVNLGIVLNNAMSGQDPEKNISFGFYGRNGMFVECLLCVNKILDRDGAVIGVFCFLQLASQELQQALSIQKLCERTASNRLKALGYMKRQIQNPLCGIIFSRKMLQQTQLGVEQKQLLINSVNCQRQISKVLDESHDLDHIIQGVIELEMVEFSLYEVLVVAISQVMMKSKGKGIQIENEVGEEIMCETLYGDNLRVQQIMADFLLISVHYAPTGGQLMLSTTFTNKDHFRNSLHLLHLEFRITYVGGGIPESLLNEMFGNDNMDHEDSSEEGYSLFISRKLVKMMNGDVRYVREAAKSTFIITLQLAAAAHK* 1149
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 20015890 20021182 - CsaV3_6G036060.1 Csa06g02220 533847

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa06g02220 1148 Pfam PAS fold 634 748 IPR013767 GO:0006355
Csa06g02220 1148 Pfam PAS fold 764 892 IPR013767 GO:0006355
Csa06g02220 1148 Gene3D PAS domain 78 326 - -
Csa06g02220 1148 PIRSF Phytochrome_conventional 7 1148 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Csa06g02220 1148 PRINTS Phytochrome signature 138 160 IPR001294 GO:0006355|GO:0009584
Csa06g02220 1148 PRINTS Phytochrome signature 238 257 IPR001294 GO:0006355|GO:0009584
Csa06g02220 1148 PRINTS Phytochrome signature 323 344 IPR001294 GO:0006355|GO:0009584
Csa06g02220 1148 PRINTS Phytochrome signature 442 462 IPR001294 GO:0006355|GO:0009584
Csa06g02220 1148 PRINTS Phytochrome signature 527 546 IPR001294 GO:0006355|GO:0009584
Csa06g02220 1148 PRINTS Phytochrome signature 560 578 IPR001294 GO:0006355|GO:0009584
Csa06g02220 1148 PRINTS Phytochrome signature 634 650 IPR001294 GO:0006355|GO:0009584
Csa06g02220 1148 PRINTS Phytochrome signature 653 668 IPR001294 GO:0006355|GO:0009584
Csa06g02220 1148 PRINTS Phytochrome signature 726 743 IPR001294 GO:0006355|GO:0009584
Csa06g02220 1148 PRINTS Phytochrome signature 746 766 IPR001294 GO:0006355|GO:0009584
Csa06g02220 1148 SMART gaf_1 223 422 IPR003018 GO:0005515
Csa06g02220 1148 SUPERFAMILY GAF domain-like 420 599 - -
Csa06g02220 1148 SUPERFAMILY GAF domain-like 203 409 - -
Csa06g02220 1148 PANTHER PHYTOCHROME A 11 1146 - -
Csa06g02220 1148 SUPERFAMILY PYP-like sensor domain (PAS domain) 637 744 IPR035965 -
Csa06g02220 1148 Coils Coil 409 429 - -
Csa06g02220 1148 ProSitePatterns Phytochrome chromophore attachment site signature. 323 332 IPR013516 -
Csa06g02220 1148 Gene3D - 417 590 IPR043150 -
Csa06g02220 1148 Gene3D PAS domain 777 899 - -
Csa06g02220 1148 PANTHER TWO-COMPONENT HISTIDINE KINASE 11 1146 - -
Csa06g02220 1148 Pfam PAS fold 74 189 IPR013654 GO:0006355
Csa06g02220 1148 SUPERFAMILY PYP-like sensor domain (PAS domain) 78 193 IPR035965 -
Csa06g02220 1148 Gene3D PAS domain 627 762 - -
Csa06g02220 1148 ProSiteProfiles PAS repeat profile. 764 816 IPR000014 -
Csa06g02220 1148 TIGRFAM sensory_box: PAS domain S-box protein 638 751 IPR000014 -
Csa06g02220 1148 Gene3D - 958 1138 IPR036890 -
Csa06g02220 1148 SUPERFAMILY PYP-like sensor domain (PAS domain) 778 889 IPR035965 -
Csa06g02220 1148 Pfam GAF domain 224 412 IPR003018 GO:0005515
Csa06g02220 1148 CDD PAS 642 748 IPR000014 -
Csa06g02220 1148 SMART pas_2 763 835 IPR000014 -
Csa06g02220 1148 SMART pas_2 633 699 IPR000014 -
Csa06g02220 1148 CDD PAS 775 892 IPR000014 -
Csa06g02220 1148 ProSiteProfiles Histidine kinase domain profile. 921 1144 IPR005467 -
Csa06g02220 1148 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 972 1140 IPR036890 -
Csa06g02220 1148 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 223 402 IPR016132 -
Csa06g02220 1148 SMART HKATPase_4 1027 1144 IPR003594 -
Csa06g02220 1148 ProSiteProfiles PAS repeat profile. 631 701 IPR000014 -
Csa06g02220 1148 Gene3D - 77 573 IPR029016 -
Csa06g02220 1148 Pfam Phytochrome region 425 600 IPR013515 GO:0006355|GO:0009584
Csa06g02220 1148 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1027 1142 IPR003594 -
Csa06g02220 1148 MobiDBLite consensus disorder prediction 1 29 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa06g02220 K12120 PHYA; phytochrome A - csv:101219585 2226.44
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa06g02220 Csa-Chr6:20015890 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