Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cco02g0306 ATGTCTTCAACGTCAACAAATAAGACTGTGTGTTCTAAGACCAGCTGCGACCGATCAAAACACGGGGCTCATGTTGTTGCACAAACCCCAATTGATGCAAAGCTTCATGTTGACTTCGAAGGTTCTGAAAGGTTCTTTGATTACTCTGCGTCGGTTGATATCAACGCCGCATGTTCCACTAGCCATGTTCATGCCTCCACTGTACAGTCATACCTTCAAAACATTCAGAGAGGAAGTCTAGTTCAACCATTTGGTTGTATGATTGCTGTGGATGGGGAAAACTTGTCTGTCCTTGCATATAGTGAAAATGCCCCCGAAATGTTGGACTTGGCCCCACACGCTGTGCCTAACATCGAGCAGCAAGAAGCTTTAACTTTTGGAACAGATGTACGAACACTTTTTCGTTCCCCAGGAGCTGCAGCTTTACAGAAAGCAGCTGACTTTAAGGAAGTTAATCTTCTCAATCCTATACTTGTCCATTGTAAAACTTCAGGTAAACCATTTTATGCAATTTTGCATCGAGTAGACGTGGGATTAATTATAGATCTGGAACCAGTTAATCCAGCTGATGTGCCAGTGACCGCAGCTGGGGCATTGAAATCGTATAAGCTAGCCGCCAAAGCCATCTCAAAATTGCAGTCCTTGCCTAGTGGGAATATATCTCTTTTATGTGAGGTATTGGTTAAGGAGGTTAGCGATTTGACAGGTTACGATCGAGTAATGGTGTATAAATTCCACGATGATGAGCATGGAGAAGTTGTAGCTGAATGCTGTCGATCGGACTTAGAACCATATCTTGGCTTGCACTACCCAGCTACTGACATACCTCAAGCTTCAAGGTTTCTTTTCTTGAAGAATAAAGTTAGAATGATATGTGATTGTTTGGCACCTCCAGTTAAAGTGCTTCAAGACAGGAGATTGACTCAGGCATTAAGTCTATGTGGGTCTGCATTGAGGGCTCCTCACGGTTGTCATGCTCGGTATATGATGAATATGGGTTCTATTGCATCTCTTGTGATGTCTACTACGATCAATGAGAATGATAGTGAATCAGAGAATGATCAAGAAAAGGATAGAAAGTTGTGGGGTTTAGTAGTTTGCCATCACACTAGCCCTAGATTTGTTCCATTTCCTTTGCGATATGCTTGTGAATTCTTGATTCAGGTATTTGGTATACAGATTAACAAAGAGGTGGAGTTGCAAGCTCAGTTGAAGGAAAAACACATATTGCGAATTCAAACAGTTCTTTGTGATATGCTGCTAAGAGATGCTCCGGTAGGAATTGTTACTCAATCTCCCAATATTATGGATCTTGTTAAATGTGATGGTGCTGCCTTATATTTCAGAAAGAAATTTTGGCTACTTGGAGTCACCCCAACAGAGGCACAAATTAGAAATATAGCTGAATGGCTTCTCAAAGACCATAGTGGAAGCACAGGTTTAAGTACCGATAGCCTTATTGAAGCTGGTTTCTATGGTGCTTCTGCACTTGGTGATGAGGTTTGTGGAATGGCTGCTGTTAGGATCACGTCTAAGGACTTCCTTTTCTGGTTTCGGTCACATATGGCTAAAGAAATCAGGTGGGGTGGTGCAAAACATGATCCTGGTGACGAGGATGATGGAAGAAAGATGCATCCGAGATCATCATTCAAGGCTTTCCTGGAAGTGGTTAAGCGGCGTAGTCAACCTTGGGAAGATGTGGAAATGGATGCCATCCATTCACTGCAATTAATATTACGAGGTTCTTTACAGGATGAGAATGAAGAAGAATGCAAGGTGATTACAAACATCCCACTCCCACCATTTGATGAGAAGACACAACAGTTGGACGAATTGCGTGTCATCACAAATGAGATGGTTCGCCTAATTGAGACAGCTGCAGTGCCCATCTTGGCTGTAGATGTCTTTGGCAAGATCAATGGTTGGAACTCCAAAGCCACTGAGCTTACTGGATTGCCTATCCAGCAAGCCACTGGCATGCCCTTAGTTGATTGTCTAGTGAATGATTCTGTTAAGGTGGTAAAGGAAATGCTGTCCTTGGCCATTCAAGGTATTGAAGAGAAGAACATTGAAATCAAACTTAAAACATTTGGAATTCCAGGGCAAAATGGTCCGGTGATCTTAGAAGTTAACTCGTGTTGTAGCCGAGACCTAAACAATAATGTCGTAGGAGTTTCTTTTATAGGGCAGGATGTTACGAAGCAAAAACTGGTTATGAACCAATACACCCAAATCCAAGGTGATTACATGGGGATTATGCGAAACCCATCTGCACTTATTCCTCCAATTTTTATGACCGATAGCGATGGCCGGTGCTTGGAATGGAATGATGCAATGGAAAAGTTATCTGGTTTTAGAAGGATAGAGATGACAAATAGGATGCTTCTTGGGGAGGTTTTCACGCTTGAAAACTTTGGCTGCCGTGTGAAAGATCACACATTGACCAAGCTTAGGATAATACTGCATAGAGTAATTTCAGGCCAGGATGCAGAGAAATCTTTGTTTAGGTTCTGTGATCGTGAAGGAAATTATGTTGAAACGTTGCTCACTGCAAGCAAAAGGACTGATGCAGAGGGTAATATCGCTGGGGTTTTCTTCTTCTTGCACGTGGCTAGTCCAGAACTTCAATATGCTTTGGAGATGCAGCGGATTTCAGAACAAGCTACAGCTGAAAATCTCCACAAATTGGCATATCTACGTCAAGAAATTCAAAAACCCCTTGATGGGATTGCATTTATACAGAATCTAATGGGTTCATCTGACTTAAGCAAAGAGCAAATGCGGCTACTTAAATTGAACACTTCGAGTCGGGAACAATTGTACAAGATTATTCATGATACTGATATCCAGAGTATTGAGGAATGTTACATGGAAACAAACTGTAGTGAATTCAACCTTGGAGATGTTCTTGACGTTGTAATGAATCAAAACATGATTTTGAGTCAAGAGCGTGGGGTGAAGATCATTTGTGAACCACCTACTGACGTGTCATCTCTGCACTTATATGGAGATAACATGAGGCTACAGCAAGTGCTCTCTGAGTTCTTGACTAACACACTTCTCTTCAGTTGCAAAGAATCATCAGTTGTCTTTAAAGCAACTCCAAGGAAGGAACGCATTGGGAAGGGAATCCACATTGTTCATCTTGAATTGAGAATCACCCATCCTGCCCCGGGAATTCCTGTACACTTAATCCGGGAGATGTTTGATGACAACAATGATAGCTCAAAGGAAGGTCTTGGCTTATACATAAGCCAGAAGCTTCTGAAGATCATGAATGGCACTGTACAGTATCTTCGAGAGGCCGAAACCTCGTCATTCATCATCCTCATAGAATTCCCCTTGGTAGAGCATATTGCTAGATGA 3366 42.1 MSSTSTNKTVCSKTSCDRSKHGAHVVAQTPIDAKLHVDFEGSERFFDYSASVDINAACSTSHVHASTVQSYLQNIQRGSLVQPFGCMIAVDGENLSVLAYSENAPEMLDLAPHAVPNIEQQEALTFGTDVRTLFRSPGAAALQKAADFKEVNLLNPILVHCKTSGKPFYAILHRVDVGLIIDLEPVNPADVPVTAAGALKSYKLAAKAISKLQSLPSGNISLLCEVLVKEVSDLTGYDRVMVYKFHDDEHGEVVAECCRSDLEPYLGLHYPATDIPQASRFLFLKNKVRMICDCLAPPVKVLQDRRLTQALSLCGSALRAPHGCHARYMMNMGSIASLVMSTTINENDSESENDQEKDRKLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGIQINKEVELQAQLKEKHILRIQTVLCDMLLRDAPVGIVTQSPNIMDLVKCDGAALYFRKKFWLLGVTPTEAQIRNIAEWLLKDHSGSTGLSTDSLIEAGFYGASALGDEVCGMAAVRITSKDFLFWFRSHMAKEIRWGGAKHDPGDEDDGRKMHPRSSFKAFLEVVKRRSQPWEDVEMDAIHSLQLILRGSLQDENEEECKVITNIPLPPFDEKTQQLDELRVITNEMVRLIETAAVPILAVDVFGKINGWNSKATELTGLPIQQATGMPLVDCLVNDSVKVVKEMLSLAIQGIEEKNIEIKLKTFGIPGQNGPVILEVNSCCSRDLNNNVVGVSFIGQDVTKQKLVMNQYTQIQGDYMGIMRNPSALIPPIFMTDSDGRCLEWNDAMEKLSGFRRIEMTNRMLLGEVFTLENFGCRVKDHTLTKLRIILHRVISGQDAEKSLFRFCDREGNYVETLLTASKRTDAEGNIAGVFFFLHVASPELQYALEMQRISEQATAENLHKLAYLRQEIQKPLDGIAFIQNLMGSSDLSKEQMRLLKLNTSSREQLYKIIHDTDIQSIEECYMETNCSEFNLGDVLDVVMNQNMILSQERGVKIICEPPTDVSSLHLYGDNMRLQQVLSEFLTNTLLFSCKESSVVFKATPRKERIGKGIHIVHLELRITHPAPGIPVHLIREMFDDNNDSSKEGLGLYISQKLLKIMNGTVQYLREAETSSFIILIEFPLVEHIAR 1121
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
2 2747414 2751968 - CcPI632755_02g003060.1 Cco02g0306 171063

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cco02g0306 1121 FunFam Phytochrome 403 534 - -
Cco02g0306 1121 FunFam Phytochrome 611 742 - -
Cco02g0306 1121 PRINTS Phytochrome signature 618 634 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Cco02g0306 1121 PRINTS Phytochrome signature 319 340 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Cco02g0306 1121 PRINTS Phytochrome signature 546 564 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Cco02g0306 1121 PRINTS Phytochrome signature 234 253 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Cco02g0306 1121 PRINTS Phytochrome signature 134 156 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Cco02g0306 1121 PRINTS Phytochrome signature 710 727 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Cco02g0306 1121 PRINTS Phytochrome signature 428 448 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Cco02g0306 1121 PRINTS Phytochrome signature 637 652 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Cco02g0306 1121 PRINTS Phytochrome signature 513 532 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Cco02g0306 1121 PRINTS Phytochrome signature 730 750 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Cco02g0306 1121 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1003 1114 IPR003594 -
Cco02g0306 1121 SMART pas_2 617 683 IPR000014 -
Cco02g0306 1121 SMART pas_2 747 817 IPR000014 -
Cco02g0306 1121 ProSiteProfiles PAS repeat profile. 757 800 IPR000014 -
Cco02g0306 1121 CDD HATPase_Phy-like 1002 1113 IPR044767 -
Cco02g0306 1121 Pfam PAS fold 71 186 IPR013654 GO:0006355(InterPro)
Cco02g0306 1121 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 219 388 IPR016132 -
Cco02g0306 1121 SMART gaf_1 219 408 IPR003018 GO:0005515(InterPro)
Cco02g0306 1121 Pfam Phytochrome region 411 586 IPR013515 GO:0006355(InterPro)|GO:0009584(InterPro)
Cco02g0306 1121 SUPERFAMILY PYP-like sensor domain (PAS domain) 75 188 IPR035965 -
Cco02g0306 1121 SMART HKATPase_4 1003 1117 IPR003594 -
Cco02g0306 1121 NCBIfam PAS domain S-box protein 762 868 IPR000014 -
Cco02g0306 1121 NCBIfam PAS domain S-box protein 622 736 IPR000014 -
Cco02g0306 1121 SUPERFAMILY PYP-like sensor domain (PAS domain) 624 735 IPR035965 -
Cco02g0306 1121 Gene3D - 403 576 IPR043150 -
Cco02g0306 1121 CDD PAS 759 869 IPR000014 -
Cco02g0306 1121 ProSiteProfiles Histidine kinase domain profile. 898 1117 IPR005467 -
Cco02g0306 1121 SUPERFAMILY GAF domain-like 406 586 - -
Cco02g0306 1121 Pfam PAS fold 618 732 IPR013767 GO:0006355(InterPro)
Cco02g0306 1121 Pfam PAS fold 758 869 IPR013767 GO:0006355(InterPro)
Cco02g0306 1121 Pfam GAF domain 222 397 IPR003018 GO:0005515(InterPro)
Cco02g0306 1121 SUPERFAMILY PYP-like sensor domain (PAS domain) 762 866 IPR035965 -
Cco02g0306 1121 Gene3D - 934 1109 IPR036890 -
Cco02g0306 1121 ProSiteProfiles PAS repeat profile. 615 685 IPR000014 -
Cco02g0306 1121 CDD PAS 626 732 IPR000014 -
Cco02g0306 1121 Gene3D PAS domain 603 746 - -
Cco02g0306 1121 Gene3D PAS domain 74 322 - -
Cco02g0306 1121 Gene3D - 200 559 IPR029016 -
Cco02g0306 1121 Gene3D PAS domain 761 872 - -
Cco02g0306 1121 FunFam Phytochrome 956 1115 - -
Cco02g0306 1121 SUPERFAMILY GAF domain-like 199 395 - -
Cco02g0306 1121 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 960 1111 IPR036890 -
Cco02g0306 1121 ProSitePatterns Phytochrome chromophore attachment site signature. 319 328 IPR013516 -
Cco02g0306 1121 PANTHER OS08G0260000 PROTEIN 1 993 - -
Cco02g0306 1121 PIRSF Phytochrome_conventional 2 1121 IPR012129 GO:0006355(InterPro)|GO:0009585(InterPro)|GO:0009881(InterPro)|GO:0017006(InterPro)|GO:0042803(InterPro)
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cco02g0306 - - - - 0.0
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cco02g0306 Cco-Chr2:2747414 Cco08g1055 Cco-Chr8:22338897 0.00E+00 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
Cco10g0065 . 5 1211 Histidine Kinase Gene Family AT2G17820 64.3 0.0e+00 1445.6
Cco11g0125 . 20 1004 Histidine Kinase Gene Family AT2G01830 71.6 0.0e+00 1343.9
Cco01g0703 . 24 966 Histidine Kinase Gene Family AT2G01830 71.8 0.0e+00 1296.2
Cco02g0290 . 279 1231 Histidine Kinase Gene Family AT2G01830 54.0 6.1e-278 954.1
Cco06g0219 . 96 1022 Histidine Kinase Gene Family AT2G01830 53.8 7.5e-268 920.6
Cco02g1037 . 304 1252 Histidine Kinase Gene Family AT2G01830 51.8 1.4e-266 916.4
Cco05g1829 . 1 1010 Histidine Kinase Gene Family AT5G10720 56.4 1.0e-289 993.0
Cco08g1055 . 150 1269 Histidine Kinase Gene Family AT1G09570 80.3 0.0e+00 1836.2
Cco08g1058 . 3 1087 Histidine Kinase Gene Family AT1G09570 67.8 0.0e+00 1519.2
Cco02g0306 . 18 1112 Histidine Kinase Gene Family AT1G09570 54.9 0.0e+00 1206.8
Cco05g0775 . 34 1120 Histidine Kinase Gene Family AT1G09570 54.3 0.0e+00 1193.3
Cco05g0775 . 13 1061 Histidine Kinase Gene Family AT2G18790 78.9 0.0e+00 1670.2
Cco03g0733 . 31 1051 Histidine Kinase Gene Family AT2G18790 60.9 0.0e+00 1245.3
Cco08g1055 . 170 1203 Histidine Kinase Gene Family AT2G18790 53.6 0.0e+00 1092.8
Cco02g0306 . 26 1069 Histidine Kinase Gene Family AT2G18790 52.3 0.0e+00 1080.1
Cco08g1058 . 22 1026 Histidine Kinase Gene Family AT2G18790 51.0 2.6e-295 1011.9
Cco02g0306 . 12 1116 Histidine Kinase Gene Family AT5G35840 61.7 0.0e+00 1365.9
Cco05g0775 . 21 1122 Histidine Kinase Gene Family AT5G35840 52.7 0.0e+00 1145.2
Cco08g1055 . 158 1263 Histidine Kinase Gene Family AT5G35840 51.9 0.0e+00 1117.4
Cco05g0775 . 30 1122 Histidine Kinase Gene Family AT4G16250 76.9 0.0e+00 1709.9
Cco03g0733 . 32 1094 Histidine Kinase Gene Family AT4G16250 59.4 0.0e+00 1267.3
Cco08g1055 . 157 1264 Histidine Kinase Gene Family AT4G16250 52.8 0.0e+00 1137.1
Cco02g0306 . 26 1115 Histidine Kinase Gene Family AT4G16250 52.8 0.0e+00 1119.8
Cco03g0733 . 15 1094 Histidine Kinase Gene Family AT4G18130 63.4 0.0e+00 1347.0
Cco05g0775 . 38 1120 Histidine Kinase Gene Family AT4G18130 58.5 0.0e+00 1263.1
       

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