Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cmo05g00967 ATGTCTACCTCTAGACCTAGTCAGTCTTCTAGCAACTCTGGGCGGTCCAGACATAGCACTAGAATTATTGCTCAAACATCTGTTGATGCAAAGCTGCAAGCTGATTTTGAGGAATCTGGGAATTCGTTTGACTACTCAAGTTCAGTGCGTGTCACTAGTGATGTTAGCGGAGATCAACAGCCTAGGTCAGACAAAGTTACTACAGCTTATCTCCATCATATTCAGAAAGGCAAACTTATCCAACCATTTGGTTGCTTGTTGGCCTTAGATGACAAAACATTCAAGGTTATTGCGTATAGTGAAAATGCCCCTGAAATGTTGACCATGGTGAGCCATGCTGTCCCAAGCATGGGGGATTACCCTGTTCTTGGCATTGGCACAGATGTAAGGACTATTTTCACTGCACCTAGTGCTTCTGCACTGTTGAAGGCCTTGGGCTTTGGAGAGGTTACACTTCTTAATCCTATCCTGGTGCATTGCAAGACTTCTGGAAAACCCTTCTATGCAATTGTTCATCGTGTTACTGGAAGCTTAATCATTGACTTTGAGCCTGTGAAGCCTTATGAAGGTCCAGTGACTGCAGCTGGAGCTCTACAATCATATAAACTTGCCGCCAAAGCGATTACTAGATTGCAGTCTTTGCCTAGTGGAAGCATGGCTAGGCTTTGTGACACAATGGTTCAAGAAGTTTTTGAACTAACAGGTTATGATCGAGTTATGGCTTATAAATTCCATGATGATGATCACGGGGAAGTGATCTCTGAAGTCACAAAGCCCGGCCTTCAGCCATATCTTGGTTTGCATTATCCAGCAACTGACATTCCTCAAGCTGCACGTTTTTTGTTCATGAAAAATAAGGTCCGGATGATTGTTGATTGTCGTGCAAAACATTTAAAAGTACTCCAAGATGAGAAATTACAGTTTGATCTAACTTTATGTGGTTCAACTTTAAGAGCTCCACACAGTTGCCATTTACAGTATATGGAAAACATGAACTCTATAGCCTCTTTGGTTATGGCAGTTGTGGTTAATGAAGGGGATGAAGAAAATGAAGGCCCTGCTTTGCAGCAACAAAAGAGAAAGAGATTATGGGGCTTGGTAGTATGTCATAATTCAAGTCCCAGATTTGTTCCGTTTCCTCTTAGGTATGCTTGTGAGTTCCTAGCTCAAGTATTTGCTATTCATGTGAACAAGGAATTAGAGTTGGAAAATCAAATTATAGAAAAGAATATTCTGCGTACGCAGACACTCTTGTGCGACATGCTAATGCGTGATGCTCCTTTAGGTATTGTGTCGAGGAGTCCTAACATAATGGATCTTGTCAAATCTGATGGGGCTGCCTTGTTATATAAGAAAAAAATTTGGCGATTAGGAATGACACCTAATGACTTCCAGTTGCTGGACATAGCCTCGTGGCTTTCCGAGTATCATATGGATTCAACGGGGTTGAGTACTGACAGTTTGTATGATGCAGGATACCCAGGAGCTATTGCTTTAGGAGATGAAGTGTGTGGGATGGCAGCTGTGAGGATAACTAATAATGACATGATTTTTTGGTTTCGATCTCACACTGCTTCAGAGATTCGATGGGGTGGAGCAAAGCATGAACATGGTCAAAAGGATGATGCTAGAAAAATGCATCCAAGATCATCTTTCAAGGCTTTCCTTGAAGTAGTCAAGACAAGAAGTTTGCCCTGGAAGGACTATGAGATGGATGCAATCCACTCTTTACAACTTATCCTTAGAAATACTTTTAAGGATACAGATGCAACTGAAATAAATAGAAAATCAATTCAAACAACACTTGGTGACCTAAAAATTGAAGGGAGGCAAGAATTGGAATCAGTAACAAGTGAGATGGTCCGGTTAATCGAGACAGCTACTGTGCCGATTTTAGCTGTTGATTTAGATGGGTTAATTAATGGGTGGAATACAAAAATTGCTGAATTGACTGGACTGCCTGTGGATAAAGCTATCGGCAAGCATTTACTTACGTTAGTGGAAGATTCATCTGTAGAAGTTGTCAGGAAGATGTTGTTCTTGGCATTGCAAGGACAAGAAGAGCAAAACGTTCAATTCGAGATCAAGACACACGGTTCTCACATTGAGGTTGGCTCCATCAGCCTAGTTGTAAATGCTTGTGCAAGTAGGGACTTGCGTGAAAATGTCGTGGGTGTGTGTTTTGTAGCACAAGATATCACTGGTCAGAAGATGGTAATGGACAAGTTCACTCGATTAGAAGGCGATTACAAAGCCATTGTACAAAATCCCAATCCATTAATCCCTCCAATATTTGGATCAGATGAATTTGGATGGTGCTCAGAGTGGAATCCTGCAATGGCGAAATTAACTGGGTGGTCACGTGAAGAAGTAATCGATAAGATGCTTTTGGGAGAGGTTTTTGGTGTTCACAAATCATGTTGTCGTTTAAAGAATCAAGAAGCTTTTGTTAATCTTGGGATTGTCTTGAACAATGCCATGTGTGGTCAAGATCCTGAGAAGGCTTCCTTTGGTTTCTTAGCTCGGAACGGGATGTACGTGGAATGTCTTCTATGTGTCAATAAGATCTTGGATAAAGATGGCGCGGTTACAGGGTTCTTTTGCTTTTTGCAGCTTCCTAGTCATGAGTTGCAACAAGCACTAAATATCCAACGCTTATGTGAGCAAACTGCATTGAAGAGATTGAGAGCATTGGGATACATAAAAAGACAGGTTCAAAATCCTCTATCTGGGATAATCTTTTCAAGAAGATTATTGGAGCGCACCGAGTTGGGAGTAGAACAAAAAGAACTTCTGCGTACTAGCGGACTCTGTCAAAAGCAGATCTCCAAGGTTCTCGATGAGTCGGACATCGATAAAATTATTGATGGGTTTGTTGATTTAGAAATGGACGAGTTTACATTGCATGAAGTATTGATGGTATCAATTAGTCAAGTGATGCTAAAGATTAAAGGAAAGGGTATCCAGATAGTTAATGAGACTCCAGAAGAGGCTATGTCCGAGACCTTATATGGAGATAGTTTAAGGCTTCAACAAGTCTTGGCGGACTTTCTATTGATATCAGTTAGTTATGCGCCTTCAGGATGCCAACTAACAATTTCAACCGATGTGACCAAGAATCAATTAGGAAAGTCGGTGCATCTGGTGCATTTGGAGTTCAGGATAACATATGCTGGAGGAGGTATACCAGAGTCGTTGCTGAACGAGATGTTTGGAAGTGAGGAGGACGCGTCCGAAGAGGGTTTCAGTCTGCTCATCAGTAGAAAGCTGGTGAAGCTGATGAACGGAGATGTACGATATATGAGGGAAGCCGGGAAGTCGAGCTTCATCATAACTGTCGAGCTTGCTGCAGCTCACAAGTCAAGGACAACGTAG 3375 41.75 MSTSRPSQSSSNSGRSRHSTRIIAQTSVDAKLQADFEESGNSFDYSSSVRVTSDVSGDQQPRSDKVTTAYLHHIQKGKLIQPFGCLLALDDKTFKVIAYSENAPEMLTMVSHAVPSMGDYPVLGIGTDVRTIFTAPSASALLKALGFGEVTLLNPILVHCKTSGKPFYAIVHRVTGSLIIDFEPVKPYEGPVTAAGALQSYKLAAKAITRLQSLPSGSMARLCDTMVQEVFELTGYDRVMAYKFHDDDHGEVISEVTKPGLQPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRAKHLKVLQDEKLQFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNEGDEENEGPALQQQKRKRLWGLVVCHNSSPRFVPFPLRYACEFLAQVFAIHVNKELELENQIIEKNILRTQTLLCDMLMRDAPLGIVSRSPNIMDLVKSDGAALLYKKKIWRLGMTPNDFQLLDIASWLSEYHMDSTGLSTDSLYDAGYPGAIALGDEVCGMAAVRITNNDMIFWFRSHTASEIRWGGAKHEHGQKDDARKMHPRSSFKAFLEVVKTRSLPWKDYEMDAIHSLQLILRNTFKDTDATEINRKSIQTTLGDLKIEGRQELESVTSEMVRLIETATVPILAVDLDGLINGWNTKIAELTGLPVDKAIGKHLLTLVEDSSVEVVRKMLFLALQGQEEQNVQFEIKTHGSHIEVGSISLVVNACASRDLRENVVGVCFVAQDITGQKMVMDKFTRLEGDYKAIVQNPNPLIPPIFGSDEFGWCSEWNPAMAKLTGWSREEVIDKMLLGEVFGVHKSCCRLKNQEAFVNLGIVLNNAMCGQDPEKASFGFLARNGMYVECLLCVNKILDKDGAVTGFFCFLQLPSHELQQALNIQRLCEQTALKRLRALGYIKRQVQNPLSGIIFSRRLLERTELGVEQKELLRTSGLCQKQISKVLDESDIDKIIDGFVDLEMDEFTLHEVLMVSISQVMLKIKGKGIQIVNETPEEAMSETLYGDSLRLQQVLADFLLISVSYAPSGCQLTISTDVTKNQLGKSVHLVHLEFRITYAGGGIPESLLNEMFGSEEDASEEGFSLLISRKLVKLMNGDVRYMREAGKSSFIITVELAAAHKSRTT 1124
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 7775625 7781005 - CmoCh05G009670.1 Cmo05g00967 383102

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cmo05g00967 1124 SMART gaf_1 218 410 IPR003018 GO:0005515
Cmo05g00967 1124 ProSiteProfiles Histidine kinase domain profile. 900 1119 IPR005467 -
Cmo05g00967 1124 SUPERFAMILY PYP-like sensor domain (PAS domain) 763 869 IPR035965 -
Cmo05g00967 1124 SMART HisKA_10 893 954 IPR003661 GO:0000155|GO:0007165
Cmo05g00967 1124 Pfam GAF domain 219 400 IPR003018 GO:0005515
Cmo05g00967 1124 ProSiteProfiles PAS repeat profile. 616 686 IPR000014 -
Cmo05g00967 1124 MobiDBLite consensus disorder prediction 39 64 - -
Cmo05g00967 1124 PRINTS Phytochrome signature 133 155 IPR001294 GO:0006355|GO:0009584
Cmo05g00967 1124 PRINTS Phytochrome signature 233 252 IPR001294 GO:0006355|GO:0009584
Cmo05g00967 1124 PRINTS Phytochrome signature 318 339 IPR001294 GO:0006355|GO:0009584
Cmo05g00967 1124 PRINTS Phytochrome signature 430 450 IPR001294 GO:0006355|GO:0009584
Cmo05g00967 1124 PRINTS Phytochrome signature 515 534 IPR001294 GO:0006355|GO:0009584
Cmo05g00967 1124 PRINTS Phytochrome signature 548 566 IPR001294 GO:0006355|GO:0009584
Cmo05g00967 1124 PRINTS Phytochrome signature 619 635 IPR001294 GO:0006355|GO:0009584
Cmo05g00967 1124 PRINTS Phytochrome signature 638 653 IPR001294 GO:0006355|GO:0009584
Cmo05g00967 1124 PRINTS Phytochrome signature 711 728 IPR001294 GO:0006355|GO:0009584
Cmo05g00967 1124 PRINTS Phytochrome signature 731 751 IPR001294 GO:0006355|GO:0009584
Cmo05g00967 1124 Pfam Phytochrome region 413 587 IPR013515 GO:0006355|GO:0009584
Cmo05g00967 1124 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1005 1115 IPR003594 -
Cmo05g00967 1124 CDD HATPase_Phy-like 1004 1115 IPR044767 -
Cmo05g00967 1124 Pfam PAS fold 69 185 IPR013654 GO:0006355
Cmo05g00967 1124 SMART pas_2 748 817 IPR000014 -
Cmo05g00967 1124 SMART pas_2 618 684 IPR000014 -
Cmo05g00967 1124 Gene3D PAS domain 74 321 - -
Cmo05g00967 1124 SMART HKATPase_4 1005 1117 IPR003594 -
Cmo05g00967 1124 Gene3D - 199 561 IPR029016 -
Cmo05g00967 1124 PANTHER TWO-COMPONENT HISTIDINE KINASE 1 1119 - -
Cmo05g00967 1124 PIRSF Phytochrome_conventional 1 1124 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cmo05g00967 1124 ProSiteProfiles PAS repeat profile. 749 801 IPR000014 -
Cmo05g00967 1124 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 218 390 IPR016132 -
Cmo05g00967 1124 SUPERFAMILY PYP-like sensor domain (PAS domain) 74 186 IPR035965 -
Cmo05g00967 1124 ProSitePatterns Phytochrome chromophore attachment site signature. 318 327 IPR013516 -
Cmo05g00967 1124 Gene3D - 956 1121 IPR036890 -
Cmo05g00967 1124 SUPERFAMILY PYP-like sensor domain (PAS domain) 622 729 IPR035965 -
Cmo05g00967 1124 MobiDBLite consensus disorder prediction 1 24 - -
Cmo05g00967 1124 SUPERFAMILY GAF domain-like 198 397 - -
Cmo05g00967 1124 Gene3D - 405 578 IPR043150 -
Cmo05g00967 1124 PANTHER PHYTOCHROME A 1 1119 - -
Cmo05g00967 1124 Coils Coil 397 417 - -
Cmo05g00967 1124 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 952 1112 IPR036890 -
Cmo05g00967 1124 CDD PAS 627 733 IPR000014 -
Cmo05g00967 1124 Gene3D PAS domain 611 748 - -
Cmo05g00967 1124 SUPERFAMILY GAF domain-like 408 585 - -
Cmo05g00967 1124 CDD PAS 760 871 IPR000014 -
Cmo05g00967 1124 Gene3D PAS domain 763 875 - -
Cmo05g00967 1124 Pfam PAS fold 749 871 IPR013767 GO:0006355
Cmo05g00967 1124 Pfam PAS fold 619 733 IPR013767 GO:0006355
Cmo05g00967 1124 TIGRFAM sensory_box: PAS domain S-box protein 623 739 IPR000014 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cmo05g00967 K12120 PHYA; phytochrome A - csv:101208491 2076.98
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cmo05g00967 Cmo-Chr5:7775625 Cmo14g01619 Cmo-Chr14:12864015 0 dispersed
Cmo19g00869 Cmo-Chr19:8367133 Cmo05g00967 Cmo-Chr5:7775625 0 transposed
Cmo12g00639 Cmo-Chr12:4071927 Cmo05g00967 Cmo-Chr5:7775625 0 wgd
       

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
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
Cmo05g00967 Cmo_Chr05 FPKM 10.53803 11.13198 8.979285 9.943741 17.440321 14.961518 19.481741 9.369545 9.615911 10.873873