Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cmo18g00427 ATGGAGAAGAATCGGAGCGGAGAAAGAGGAGCGATGGCGTTTTCGTCCTCGGTGGATAGCAATATGAGGGCTCGTCTGAGTAACACCACTAGCACCGGCAACAGAGCTGCGGCACTTGTGCAATACAATGCCGATGCTGGAATTATGAGCAAGTTTGAGCAATCGGATGCCTCTGGTGAGTCTTTTAATTATTCGAGGTCAGTTCTTGAAGCTAATGAATCTGTTCCCGAAGAACAAATTGCTGCTTATCTGTCTAGGATTCAGAGGGGTGGGCTGGTTCAATCGTTTGGTTGTTTGCTTGCGATTGATGAGTCTAGTTTTAAGATTATTAGCTATAGTGAGAACTGTCTTGAAATTTTGGGGTTACATGATGAATTTGAGTCGGCACAGGGGAAGGGATTGATTGGGGTTGATATGAGAGCTCTGTTTACGCCTTCCTCCGGTGCTTCTTTGGCTAAAGCAGCTTCTTCCAGGGAGATTTCGTTGTTGAATCCTGTTTGGGTCTATTCTAGGACTACTCAGAAGCCATTTTATGCTATATTGCATAGGATTGATGTGGGGATTGTGATTGATTTAGAGCCTACACGATCTTTTGATCCTGCATTGTCGCTTGCTGGCACGGTTCAGTCACAGAAACTAGCGGTTCGGGCGATTTCTAGGCTGCAGGCTCTACCTGGTGGTGATATAGGTGTTCTGTGTGACACGGTTGTGGAAGATGTGCAGAAGCTTACAGGGTATGATAGAGTGATGGTGTATAAGTTCCATGATGATGAACATGGTGAAGTAGTGTCAGAAATCAGAAGGTCTGACTTAGAGCCATATCTCGGTTTGCATTATCCTGCCATTGATATACCGCAAGCTGCTCGTTTTTTGTTCAAGCAAAACCGCATCAGGATGATTTGTGATTGCCACGCGAAGCCTGTGCAGGTCATTCAAAGTGATGAGCTAAAGCAGCCTCTTTGTTTGGTTAATTCAACACTTCGATCACCCCATAGCTGTCATTTGCAGTACATGTCGAATATGGGTTCCTTAGCCTCGTTAGCAATGGCTGTAATCATGAATAGTGACGACTCGCCAACACGGTTATGGGGCTTGGTTGTGTGCCACCATACTTCTCCACGATATGTCCCTTTCCCACTTCGTTATGCTTGTGAGCTTCTCATCCAGGCATTTGGGCTGCAGCTTTACATGGAGCTTCAATTGTCATTACAATTAACAGAGAAAAAGATTCTCAAGACGCAAACGTTCCTCTGTGACATGCTTCTTCGAGGCTCCCCATGTGCATTGCTGATGCAGTCTCCTAGTATAATGGATCTTGTGAAGTGTGATGGTGCAGCATTGTACTATAATGCGGCATGTTGTTTACTTGGTATAACTCCAACTGAAGCACAAGTCAAAGATCTTGTAGAGTGGGTACTTAATAGCCATGGGGATTCTACGGGACTGAGCACGGATAGTTTGGCTGATGCTGGCTACCCCGAAGCTGCTTCTCTAGGTGATGCAGTGTGTGGTATGGCAGCTGCAAGAATTGGTTCCAAGGATTTCTTATTCTGGTTCAGGTCTCAGGCAGCAAAGGAAATCCAATGGGGAGGAGCCAAGCATCATCCGGATATTAAGGACGATGGTGGAAAACTGCACCCAAGATCATCATTTAAAGCGTTTCTTGAAGTTGCAAAGAGTAGAAGTTTGCCTTGGGAAGTTCAAGAAATAAATGCCATTCACTCGTTGCAGCTTATTATGAGGGAGTCTTTTTCTAACTCTAGGGACAGTGATTCAAAGGTAGAAGCTTCTGCCCAGCTGAGTGATACTGTAGTTCAGGATATCGATGAACTCAGTTCAGCAGCTTGCGAAATGGTGAGGTTGATTGAAACAGCAACTGTTCCAATTTTTGGGGTTGATTCAACTGGTGTGATCAATGGATGGAATGCTAAAATTTCTGAACTCGTAGGATTACAAACTAGTGAAGCATTGGGTAGATCTCTGGTTAATGAAATTGTTCATGAAGATTCACGTGGAACTGTTGGAGATTTACTTTCCCATGCTCTTCAAGGTAAGGAAGACAACAATGTGGAGTTAAAACTGAGAAGTTTTCGATCTAATAAAGAAAATTCTACCATTTATATTGTCGTTAATGCTTGCACAAGTAGGGATTACACAAACAAAATTGTCGGGGTTTGCTTTGTCGGGAAAGATATTACGTCCGAGAAAGGTGTGATGGATAAATTTATACGTCTGCAGGGAGATTATAAGGCTATTATTGAAAGTTTGAGTCCATTGATCCCACCGATATTTGTTTCGGACGTGAACGGTTACTGCTGTGAATGGACTGCAGCCATGGAAAAGCTTTCTGGTTGGAGAAAAGATGAAGTTATAGGAAAAATGCTAGCTGGGGAGATATTTGGAAATTTTTGTAGGTTGAAAGGTCTAGATACGCTCACTAGTTTTATGATCCTTTTATATCAAGGTATCGACGGTCAAGAAACCGAGAAGTTTCCGTTAGGATTTTTCAATAAGGATGGGAACTATGAGGAGGTTCTTTTAACATCAAACAAAAGAACTGATGCAGAAGGTAACATCATTGGTTGTATCTGCTTCCTGCAAATTGTTCAGCCCAACTTGCATGGGGTCTCTGAAGGACTTGGAGTGGGCGACAGAGAGGGAAATTTGCAGCTTAAGGAGTTGACTTACATAAAGCAGGAGATGAAAAATCCTTTAAATGGCATTAGATTTACTCATGAACTTCTTGTAAATTCAGGCATTACAGAAAACCAGAAGCTCTTTCTCGATACCAGTGGCGCATGCGAGAGACAAATCATGACGATCATAGAGGATATGGACTTCAGAAGTTTAGAAGGAGGCCAAGTAGAGATAAACAGAGAAGAATTTATCCTCGGGAGTGTGCTGGACGCCATTATCTGTCAAATCATGACTGTTGTCAGAGAGAAGAAAATACAACTTTTTCATGAGATTCCAGAAGAAATCAAAGTGTTAAATCTTTGTGGCGATCATATTAAGCTTCAGTTGGTTTTGTCAGATTTCTTGCTTAATGTCGTGCAGTACGCGCCTGTTCCGGATGGCTGGGTCGAAATCAAAATTTCATCTGGTTTGAAGCTTATACAAGATGGAAATGAACATATTCACTTGCAGATCAGAATGTCTCATCCAGGTCAAGGTCTGCCTCCTGAACTAATCCAAGATATGGTTGGAGGAGGCCAGCAATGGACTTCAAAGCAAGGCCTTGCTCTAAACCTGTCACGTAGACTTCTCAATAAGTTGAGCGGTAACATACGCTACGTTAGAGAGCAAACTAAATGCTACTTCATCATCGATCTCGAGCTCAAATTAAGGCGCTCGAGAGGGTCGATGGAAGCTACTACAAGCCAAGGGACATGA 3393 43.06 MEKNRSGERGAMAFSSSVDSNMRARLSNTTSTGNRAAALVQYNADAGIMSKFEQSDASGESFNYSRSVLEANESVPEEQIAAYLSRIQRGGLVQSFGCLLAIDESSFKIISYSENCLEILGLHDEFESAQGKGLIGVDMRALFTPSSGASLAKAASSREISLLNPVWVYSRTTQKPFYAILHRIDVGIVIDLEPTRSFDPALSLAGTVQSQKLAVRAISRLQALPGGDIGVLCDTVVEDVQKLTGYDRVMVYKFHDDEHGEVVSEIRRSDLEPYLGLHYPAIDIPQAARFLFKQNRIRMICDCHAKPVQVIQSDELKQPLCLVNSTLRSPHSCHLQYMSNMGSLASLAMAVIMNSDDSPTRLWGLVVCHHTSPRYVPFPLRYACELLIQAFGLQLYMELQLSLQLTEKKILKTQTFLCDMLLRGSPCALLMQSPSIMDLVKCDGAALYYNAACCLLGITPTEAQVKDLVEWVLNSHGDSTGLSTDSLADAGYPEAASLGDAVCGMAAARIGSKDFLFWFRSQAAKEIQWGGAKHHPDIKDDGGKLHPRSSFKAFLEVAKSRSLPWEVQEINAIHSLQLIMRESFSNSRDSDSKVEASAQLSDTVVQDIDELSSAACEMVRLIETATVPIFGVDSTGVINGWNAKISELVGLQTSEALGRSLVNEIVHEDSRGTVGDLLSHALQGKEDNNVELKLRSFRSNKENSTIYIVVNACTSRDYTNKIVGVCFVGKDITSEKGVMDKFIRLQGDYKAIIESLSPLIPPIFVSDVNGYCCEWTAAMEKLSGWRKDEVIGKMLAGEIFGNFCRLKGLDTLTSFMILLYQGIDGQETEKFPLGFFNKDGNYEEVLLTSNKRTDAEGNIIGCICFLQIVQPNLHGVSEGLGVGDREGNLQLKELTYIKQEMKNPLNGIRFTHELLVNSGITENQKLFLDTSGACERQIMTIIEDMDFRSLEGGQVEINREEFILGSVLDAIICQIMTVVREKKIQLFHEIPEEIKVLNLCGDHIKLQLVLSDFLLNVVQYAPVPDGWVEIKISSGLKLIQDGNEHIHLQIRMSHPGQGLPPELIQDMVGGGQQWTSKQGLALNLSRRLLNKLSGNIRYVREQTKCYFIIDLELKLRRSRGSMEATTSQGT 1130
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
18 2811865 2819141 - CmoCh18G004270.1 Cmo18g00427 402200

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cmo18g00427 1130 ProSiteProfiles PAS repeat profile. 748 800 IPR000014 -
Cmo18g00427 1130 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 228 389 IPR016132 -
Cmo18g00427 1130 SMART pas_2 616 683 IPR000014 -
Cmo18g00427 1130 SMART pas_2 747 817 IPR000014 -
Cmo18g00427 1130 Pfam PAS fold 617 732 IPR013767 GO:0006355
Cmo18g00427 1130 Pfam PAS fold 748 867 IPR013767 GO:0006355
Cmo18g00427 1130 SUPERFAMILY GAF domain-like 208 395 - -
Cmo18g00427 1130 SUPERFAMILY PYP-like sensor domain (PAS domain) 762 864 IPR035965 -
Cmo18g00427 1130 SMART gaf_1 228 409 IPR003018 GO:0005515
Cmo18g00427 1130 SUPERFAMILY GAF domain-like 407 584 - -
Cmo18g00427 1130 ProSitePatterns Phytochrome chromophore attachment site signature. 328 337 IPR013516 -
Cmo18g00427 1130 Gene3D - 404 577 IPR043150 -
Cmo18g00427 1130 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 954 1113 IPR036890 -
Cmo18g00427 1130 CDD HisKA 894 949 IPR003661 GO:0000155|GO:0007165
Cmo18g00427 1130 CDD PAS 625 732 IPR000014 -
Cmo18g00427 1130 PRINTS Phytochrome signature 143 165 IPR001294 GO:0006355|GO:0009584
Cmo18g00427 1130 PRINTS Phytochrome signature 243 262 IPR001294 GO:0006355|GO:0009584
Cmo18g00427 1130 PRINTS Phytochrome signature 328 349 IPR001294 GO:0006355|GO:0009584
Cmo18g00427 1130 PRINTS Phytochrome signature 429 449 IPR001294 GO:0006355|GO:0009584
Cmo18g00427 1130 PRINTS Phytochrome signature 514 533 IPR001294 GO:0006355|GO:0009584
Cmo18g00427 1130 PRINTS Phytochrome signature 547 565 IPR001294 GO:0006355|GO:0009584
Cmo18g00427 1130 PRINTS Phytochrome signature 617 633 IPR001294 GO:0006355|GO:0009584
Cmo18g00427 1130 PRINTS Phytochrome signature 636 651 IPR001294 GO:0006355|GO:0009584
Cmo18g00427 1130 PRINTS Phytochrome signature 710 727 IPR001294 GO:0006355|GO:0009584
Cmo18g00427 1130 PRINTS Phytochrome signature 730 750 IPR001294 GO:0006355|GO:0009584
Cmo18g00427 1130 ProSiteProfiles PAC domain profile. 688 744 IPR000700 -
Cmo18g00427 1130 Pfam PAS fold 82 194 IPR013654 GO:0006355
Cmo18g00427 1130 Gene3D PAS domain 86 331 - -
Cmo18g00427 1130 Pfam GAF domain 228 399 IPR003018 GO:0005515
Cmo18g00427 1130 Gene3D - 209 560 IPR029016 -
Cmo18g00427 1130 Pfam His Kinase A (phospho-acceptor) domain 894 953 IPR003661 GO:0000155|GO:0007165
Cmo18g00427 1130 ProSiteProfiles Histidine kinase domain profile. 896 1115 IPR005467 -
Cmo18g00427 1130 PIRSF Phytochrome_conventional 15 1122 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cmo18g00427 1130 Pfam Phytochrome region 413 587 IPR013515 GO:0006355|GO:0009584
Cmo18g00427 1130 Gene3D PAS domain 615 736 - -
Cmo18g00427 1130 Gene3D - 933 1107 IPR036890 -
Cmo18g00427 1130 SUPERFAMILY PYP-like sensor domain (PAS domain) 620 728 IPR035965 -
Cmo18g00427 1130 Gene3D PAS domain 761 872 - -
Cmo18g00427 1130 CDD PAS 759 867 IPR000014 -
Cmo18g00427 1130 SUPERFAMILY PYP-like sensor domain (PAS domain) 87 196 IPR035965 -
Cmo18g00427 1130 ProSiteProfiles PAS repeat profile. 614 685 IPR000014 -
Cmo18g00427 1130 SMART HKATPase_4 1001 1113 IPR003594 -
Cmo18g00427 1130 TIGRFAM sensory_box: PAS domain S-box protein 621 736 IPR000014 -
Cmo18g00427 1130 PANTHER TWO-COMPONENT HISTIDINE KINASE 35 1119 - -
Cmo18g00427 1130 PANTHER PHYTOCHROME E 35 1119 - -
Cmo18g00427 1130 SMART HisKA_10 889 953 IPR003661 GO:0000155|GO:0007165
Cmo18g00427 1130 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1001 1111 IPR003594 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cmo18g00427 K12123 PHYE; phytochrome E - csv:101214900 1948.71
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cmo06g01560 Cmo-Chr6:10988616 Cmo18g00427 Cmo-Chr18:2811865 0 dispersed
Cmo14g01619 Cmo-Chr14:12864015 Cmo18g00427 Cmo-Chr18:2811865 0 dispersed
Cmo18g00427 Cmo-Chr18:2811865 Cmo19g00869 Cmo-Chr19:8367133 0 dispersed
Cmo13g00596 Cmo-Chr13:6604946 Cmo18g00427 Cmo-Chr18:2811865 0 wgd
       

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
Cmo16g01290 . 31 1193 Histidine Kinase Gene Family AT2G17820 65.0 0.0e+00 1438.7
Cmo06g00111 . 515 1725 Histidine Kinase Gene Family AT2G17820 63.1 0.0e+00 1428.3
Cmo04g00017 . 53 1033 Histidine Kinase Gene Family AT2G01830 70.5 0.0e+00 1321.6
Cmo04g02235 CST 23 1023 Histidine Kinase Gene Family AT2G01830 69.3 0.0e+00 1304.7
Cmo15g00925 CST 155 1182 Histidine Kinase Gene Family AT2G01830 67.1 0.0e+00 1268.4
Cmo11g01837 . 279 1229 Histidine Kinase Gene Family AT2G01830 53.2 2.1e-273 939.5
Cmo20g00674 . 297 1240 Histidine Kinase Gene Family AT2G01830 53.5 8.1e-273 937.6
Cmo08g00183 . 51 984 Histidine Kinase Gene Family AT2G01830 52.3 1.3e-265 913.7
Cmo02g00226 . 283 1214 Histidine Kinase Gene Family AT2G01830 51.2 8.2e-257 884.4
Cmo17g01385 . 58 980 Histidine Kinase Gene Family AT2G01830 50.7 6.9e-256 881.3
Cmo01g01734 CST 1 999 Histidine Kinase Gene Family AT5G10720 57.1 2.2e-290 995.7
Cmo09g00388 CST 1 996 Histidine Kinase Gene Family AT5G10720 56.5 4.1e-289 991.5
Cmo05g00967 . 1 1120 Histidine Kinase Gene Family AT1G09570 79.4 0.0e+00 1817.7
Cmo12g00639 . 23 1087 Histidine Kinase Gene Family AT1G09570 69.9 0.0e+00 1566.2
Cmo19g00869 . 18 1111 Histidine Kinase Gene Family AT1G09570 54.4 0.0e+00 1205.7
Cmo14g01619 CST 35 1120 Histidine Kinase Gene Family AT1G09570 54.4 0.0e+00 1195.6
Cmo06g01560 CST 29 1109 Histidine Kinase Gene Family AT1G09570 52.0 0.0e+00 1137.1
Cmo14g01619 CST 13 1061 Histidine Kinase Gene Family AT2G18790 79.1 0.0e+00 1670.6
Cmo06g01560 CST 28 1050 Histidine Kinase Gene Family AT2G18790 76.7 0.0e+00 1585.5
Cmo18g00427 . 31 1051 Histidine Kinase Gene Family AT2G18790 59.3 0.0e+00 1226.1
Cmo13g00596 . 31 1050 Histidine Kinase Gene Family AT2G18790 59.5 0.0e+00 1226.1
Cmo05g00967 . 21 1054 Histidine Kinase Gene Family AT2G18790 53.3 0.0e+00 1086.2
Cmo19g00869 . 26 1068 Histidine Kinase Gene Family AT2G18790 52.1 0.0e+00 1075.8
Cmo19g00869 . 12 1115 Histidine Kinase Gene Family AT5G35840 61.1 0.0e+00 1368.2
Cmo14g01619 CST 21 1122 Histidine Kinase Gene Family AT5G35840 52.7 0.0e+00 1147.5
Cmo05g00967 . 9 1114 Histidine Kinase Gene Family AT5G35840 51.8 0.0e+00 1110.5
Cmo06g01560 CST 29 1111 Histidine Kinase Gene Family AT5G35840 51.3 0.0e+00 1100.5
Cmo14g01619 CST 30 1122 Histidine Kinase Gene Family AT4G16250 77.2 0.0e+00 1710.3
Cmo06g01560 CST 32 1111 Histidine Kinase Gene Family AT4G16250 73.4 0.0e+00 1619.8
Cmo18g00427 . 38 1113 Histidine Kinase Gene Family AT4G16250 57.3 0.0e+00 1256.5
Cmo13g00596 . 32 1092 Histidine Kinase Gene Family AT4G16250 57.9 0.0e+00 1245.3
Cmo05g00967 . 8 1115 Histidine Kinase Gene Family AT4G16250 52.8 0.0e+00 1131.7
Cmo19g00869 . 26 1114 Histidine Kinase Gene Family AT4G16250 52.0 0.0e+00 1107.4
Cmo18g00427 . 15 1130 Histidine Kinase Gene Family AT4G18130 61.2 0.0e+00 1349.7
Cmo13g00596 . 15 1092 Histidine Kinase Gene Family AT4G18130 63.4 0.0e+00 1345.1
Cmo14g01619 CST 38 1120 Histidine Kinase Gene Family AT4G18130 59.0 0.0e+00 1275.4
Cmo06g01560 CST 40 1109 Histidine Kinase Gene Family AT4G18130 56.7 0.0e+00 1231.5
       

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
Cmo18g00427 Cmo_Chr18 FPKM 0.0 2.307301 0.0 2.192277 0.0 0.0 0.0 0.0 2.451152 4.188815