Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cmo12g00639 ATGTCGTTGAGTAGACCCAGCCCGTCCACAAACACAGGAGGATCCTCCTCCTCCTCCTCTTCACAATCAAGACACACTTCAAGAATTCTCACTCAAACCTCCATAGATGCAAAGCTCCACTCCCACTTCCAACACTCCGCTTCTTCCTTCGACTACTCTTCTTCAATCCATCTCACAGCCAACCCACCATCAACCACCACCACCCCCACCACCACCGCATACCTCCACCACATCCAACGCTCCAACCTCATCCAACCCTTCGGCTGCCTCATAGCCCTCCACCCAACCACCCACAAACTCATCGCCTTCAGCCAAAACGCCCCTGAATTCCTCACCACAGTCTCCCACACCGTCCCCACCATCTCCGACCGCCCTGTCCTCGCCTTTGGCACCACCCTCCATTCCATCTTCACCCCTCCCACCGCCACAGCCCTCCTCAAAGCTCTAGCCTTTCCCGACGTCACTCTCCTCAACCCCATTCTCGTCCACTCCAAATCCTCACAAAAACCCTTCTACGCCATTCTCCACCGTGTCACCGGTAGCCTCATCATCGACTTCGAACCCGTCAACCCCGACGAAGTCCCCGTCACCGCAGCCGGTGCTCTCCAATCATATAAACTCGCAGCCAAAGCCATCACTCGCCTCCAAGCTCTCCCTAGTGGAAGCATGGCCAGGCTTTGTGACACCATGGTTCAAGAAGTGTTTGAACTCACAGGATATGATCGAGTCATGGCATATAAATTCCATGATGATGATCATGGGGAGGTGTTCTCTGAGGTTACAAAGCCTGGACTTGACCCATATCTTGGATTGCATTATCCAGCCACTGACATCCCACAAGCTGCAAGGTTCTTATTCATGAAGAACAAGGTTAGAATGATTGTGGACTGCAAAGCCAAGCATGTCAAGGTGATTCAAGACCCAAATCTTGAGTTTGACTTGACATTATGTGGGTCAACATTGAGAGCTCCTCATAGTTGCCATTTACAATATATGGAGAATATGGATTCAATTGCATCTTTAGTTATGGCAATTGTGGTGAATGAGGAAGAACATGAAGAACAATTTGATCATAAGAACAAGAGAAAAAAATTATGGGGTTTGGTGGTTTGTCATAACACAACTCCAAGATTTGTTCCCTTTCCTCTTAGATATGCATGTGAATTTCTAGCTCAAGTTTTTGCAATTCATGTCAACAAAGAATTGGAATTGGAGAATCAAATTTTGGAGAAGAACATCTTAAGAACTCAAACGCTTTTGTGTGATATGTTGATGCGTGATGCACCATTAGGGATTGTGTCAAGGAGCCCTAATATAATGGATCTTGTGAAGTCAGATGGGGCTGCATTGTTGTACAATGATAAGGTATGGAGATTAGGGATGACTCCTAATGATTTTGAGCTTCATGATATTGCTTCATGGATTTTGGAGTATCATGTGGATTCGACTGGATTGAGTACGGATAGCTTGTACGATGCGGGGTATCATGGCGCGGTTTCTCTAGGAGACGGCGTGTGTGGGATGGCGGCGGTGAGGCTAGGTTGCAACGACATGATTTTTTGGTTCCGATCGCATGCTGCATCGGAGATTAGGTGGGGCGGGGCAAAGCATGAGGCGGGTGAGAAGGATGATGGAAGGAGAATGCATCCTAGGTCATCTTTCAAGGCTTTTCTTGAAGTGGTTAAGACAAGGAGTTTGCCTTGGAAGGACTTTGAAATGGATGCTATTCATTCTTTGCAGCTTATACTAAGAAACACTTATAAAGATAAAGAGATTAATAAAAGTTCAATACAATCAACACTTAGTGACCTGAAAATTGATGGGAGGCAAGAGATTGAATCAGTGACATGTGAGATGGTGAGGTTGATTGAAACGGCTAGTGTTCCAATTTTGGCTGTTGATGTGGATGGGCTTGTTAATGGGTGGAACTCAAAAATTGCGGAATTGACTGGAATTTGTGTTGACAAGGCTATTGGCAAGCATTTGTTGACACTGGTGGAAGATTCTTCGTTGGAAACTGTGAAGAAGATCCTAATAGTAAATGCATGTGCAAGCAAAGACTTGTGTGAGAACGTTGTGGGAGTATGCTTCGTAGCACAAGACATCACCCATGAAAAGAAAGTGATGGACAAGTTCACAAAATTACAAGGCGATTACAAAGCCATAGTACAAAACCCCAACCCACTAATCCCTCCAATATTTGGGGTAGACGAATTCGGTTGGTGCACTGAGTGGAACTTAGCAATGGCAAATCTAAGTGGATGGTCAAGAGAAGAAGTGCTGAACAAGATGCTTTTGGGGGAAGTTTTTGGGTCATGCTGCCATGTAAAGAACCAAGAAGCCTTTGTGAATCTTGGGATTGTTTTGAACAATGCCATGAGTGGCCAAGATTCTGATAAGATATCATTTGGGTTCTTTGCAAGAGATGGGATGTTTGTGGAATGTCTTCTTTGTGTGAATAAGATAATGGATAGAGATGGGGAAGTGATTGGGGTTTTTTGCTTCTTGCAGCTTGCTAGCCAAGAGCTGCAACAAGCTTTGAATGTTCAAAAGTTGTGTGAGAGAACGGCTTTGAAAAGGTTGAAGGCTTTGGGATATATTAAGAGGCAGATCCAAAATCCTCTTTGTGGGATTGTTTTTTCGAGTAAGATGTTGGAGAGATCTCAGTTGGGTGATGAACAGAACCAGCTTTTGCTTAATAGTGGTGATTGTCAAAGGCAGATCTTTAAGGTTCTTCATGATTCGGATGATCTTGATAAGATTATTGAAGGCTTCATTGATTTAGAAATGGTTGAGTTCTCATTACACGAAGCATTAGTGGTATCAATTAGTCAAGTAATGATGAAGAGCAAAGGCAAAGGTATCCAAATAGTAAACGAGGTAGCAGAAGAGATCATGTCCGAAACCTTATATGGAGACAGTTTGAGACTTCAACAAGTAATGGCTGATTTCTTGTTGATATCAGTAAATTACGCACCAACAGGAAGCAGCATTATGGTTTCAACAAATATGACAAAGGATGAATCAGGGAAGTCAGTGAATCTTGTGCATGTGGAGTTCAGGATAACATATGTCGGTGGTGGCATGCCAGAATCGTTGTTGAATGAGATGTTTGGGAATGATGAGGAGGCGTCTGAAGAAGGTTTTAGCCTTCTGGTGAGTAGAAAGTTGGTGAAGTTGATGAATGGAGAGGTGAGATATGTGAGGGAAGCAGCCAATTCAACCTTCATCATAACTCTTCAGCTTGCTGCAGCTCATAAATAG 3264 44.15 MSLSRPSPSTNTGGSSSSSSSQSRHTSRILTQTSIDAKLHSHFQHSASSFDYSSSIHLTANPPSTTTTPTTTAYLHHIQRSNLIQPFGCLIALHPTTHKLIAFSQNAPEFLTTVSHTVPTISDRPVLAFGTTLHSIFTPPTATALLKALAFPDVTLLNPILVHSKSSQKPFYAILHRVTGSLIIDFEPVNPDEVPVTAAGALQSYKLAAKAITRLQALPSGSMARLCDTMVQEVFELTGYDRVMAYKFHDDDHGEVFSEVTKPGLDPYLGLHYPATDIPQAARFLFMKNKVRMIVDCKAKHVKVIQDPNLEFDLTLCGSTLRAPHSCHLQYMENMDSIASLVMAIVVNEEEHEEQFDHKNKRKKLWGLVVCHNTTPRFVPFPLRYACEFLAQVFAIHVNKELELENQILEKNILRTQTLLCDMLMRDAPLGIVSRSPNIMDLVKSDGAALLYNDKVWRLGMTPNDFELHDIASWILEYHVDSTGLSTDSLYDAGYHGAVSLGDGVCGMAAVRLGCNDMIFWFRSHAASEIRWGGAKHEAGEKDDGRRMHPRSSFKAFLEVVKTRSLPWKDFEMDAIHSLQLILRNTYKDKEINKSSIQSTLSDLKIDGRQEIESVTCEMVRLIETASVPILAVDVDGLVNGWNSKIAELTGICVDKAIGKHLLTLVEDSSLETVKKILIVNACASKDLCENVVGVCFVAQDITHEKKVMDKFTKLQGDYKAIVQNPNPLIPPIFGVDEFGWCTEWNLAMANLSGWSREEVLNKMLLGEVFGSCCHVKNQEAFVNLGIVLNNAMSGQDSDKISFGFFARDGMFVECLLCVNKIMDRDGEVIGVFCFLQLASQELQQALNVQKLCERTALKRLKALGYIKRQIQNPLCGIVFSSKMLERSQLGDEQNQLLLNSGDCQRQIFKVLHDSDDLDKIIEGFIDLEMVEFSLHEALVVSISQVMMKSKGKGIQIVNEVAEEIMSETLYGDSLRLQQVMADFLLISVNYAPTGSSIMVSTNMTKDESGKSVNLVHVEFRITYVGGGMPESLLNEMFGNDEEASEEGFSLLVSRKLVKLMNGEVRYVREAANSTFIITLQLAAAHK 1087
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
12 4071927 4077025 + CmoCh12G006390.1 Cmo12g00639 393327

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cmo12g00639 1087 PANTHER TWO-COMPONENT HISTIDINE KINASE 15 1085 - -
Cmo12g00639 1087 SUPERFAMILY PYP-like sensor domain (PAS domain) 78 192 IPR035965 -
Cmo12g00639 1087 Coils Coil 399 419 - -
Cmo12g00639 1087 PANTHER PHYTOCHROME A 15 1085 - -
Cmo12g00639 1087 SMART HKATPase_4 972 1084 IPR003594 -
Cmo12g00639 1087 MobiDBLite consensus disorder prediction 1 28 - -
Cmo12g00639 1087 ProSiteProfiles PAS repeat profile. 615 678 IPR000014 -
Cmo12g00639 1087 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 222 392 IPR016132 -
Cmo12g00639 1087 SUPERFAMILY GAF domain-like 202 399 - -
Cmo12g00639 1087 Pfam PAS fold 718 837 IPR013767 GO:0006355
Cmo12g00639 1087 Pfam PAS fold 618 677 IPR013767 GO:0006355
Cmo12g00639 1087 Gene3D PAS domain 731 844 - -
Cmo12g00639 1087 Pfam PAS fold 73 189 IPR013654 GO:0006355
Cmo12g00639 1087 ProSiteProfiles Histidine kinase domain profile. 866 1084 IPR005467 -
Cmo12g00639 1087 SUPERFAMILY GAF domain-like 410 587 - -
Cmo12g00639 1087 Gene3D PAS domain 77 325 - -
Cmo12g00639 1087 SMART pas_2 617 682 IPR000014 -
Cmo12g00639 1087 SMART pas_2 717 787 IPR000014 -
Cmo12g00639 1087 ProSitePatterns Phytochrome chromophore attachment site signature. 322 331 IPR013516 -
Cmo12g00639 1087 CDD PAS 729 837 IPR000014 -
Cmo12g00639 1087 Pfam GAF domain 223 402 IPR003018 GO:0005515
Cmo12g00639 1087 Gene3D - 924 1086 IPR036890 -
Cmo12g00639 1087 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 972 1082 IPR003594 -
Cmo12g00639 1087 Gene3D - 407 580 IPR043150 -
Cmo12g00639 1087 Gene3D PAS domain 607 707 - -
Cmo12g00639 1087 SUPERFAMILY PYP-like sensor domain (PAS domain) 732 835 IPR035965 -
Cmo12g00639 1087 PRINTS Phytochrome signature 322 343 IPR001294 GO:0006355|GO:0009584
Cmo12g00639 1087 PRINTS Phytochrome signature 517 536 IPR001294 GO:0006355|GO:0009584
Cmo12g00639 1087 PRINTS Phytochrome signature 237 256 IPR001294 GO:0006355|GO:0009584
Cmo12g00639 1087 PRINTS Phytochrome signature 432 452 IPR001294 GO:0006355|GO:0009584
Cmo12g00639 1087 PRINTS Phytochrome signature 637 652 IPR001294 GO:0006355|GO:0009584
Cmo12g00639 1087 PRINTS Phytochrome signature 618 634 IPR001294 GO:0006355|GO:0009584
Cmo12g00639 1087 PRINTS Phytochrome signature 137 159 IPR001294 GO:0006355|GO:0009584
Cmo12g00639 1087 PRINTS Phytochrome signature 550 568 IPR001294 GO:0006355|GO:0009584
Cmo12g00639 1087 Gene3D - 203 563 IPR029016 -
Cmo12g00639 1087 ProSiteProfiles PAS repeat profile. 718 796 IPR000014 -
Cmo12g00639 1087 Pfam Phytochrome region 415 590 IPR013515 GO:0006355|GO:0009584
Cmo12g00639 1087 SUPERFAMILY PYP-like sensor domain (PAS domain) 621 677 IPR035965 -
Cmo12g00639 1087 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 917 1080 IPR036890 -
Cmo12g00639 1087 PIRSF Phytochrome_conventional 7 679 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cmo12g00639 1087 PIRSF Phytochrome_conventional 675 1087 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cmo12g00639 1087 CDD PAS 626 679 IPR000014 -
Cmo12g00639 1087 SMART gaf_1 222 412 IPR003018 GO:0005515
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cmo12g00639 K12120 PHYA; phytochrome A - csv:101219585 1759.96
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cmo12g00639 Cmo-Chr12:4071927 Cmo19g00869 Cmo-Chr19:8367133 0 dispersed
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
Cmo12g00639 Cmo_Chr12 FPKM 51.681187 54.072624 103.380997 102.714561 408.025146 478.399506 403.99649 19.668085 18.278599 16.675077