Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cmo06g01560 ATGGTTTCGAGTAATCGGGGGACGAATTCGCATCAGCAACAAGCAGAGTCCTCGAACACGAACACGAACACGAGCCATATGCGATCTAATCGTACAGAATCCATCAGCAAAGCCGTAGCGCAGTACACCATCGATGCTCGTCTTCACGCAGTGTTTGAACAGTCAGGTGAGTCCGGTAAATCTTTTGACTACTCACAATCTATTAGAACTTCGACACAATCTGTGCCGGAGCAGCAAATTACGGCTTATTTATCGATGATTCAAAGGGGCGGCCATATCCAGCCCTTTGGATGTATGATAGCTATCGATGAGGAAAATTTTCGGGTTATTGCTTATAGTGAAAACACTAGGGAATTGCTTGGTCTTACTCCTCAATCAGTGCCAAATCTTGAAAAGATAGAGATTCTCACAATTGGAACTGATGTACGGAACTTGTTCACTTCCAATAGTGCAATTTTGCTTGAGAAAGCATTTGGGGCTCGAGAAATCACTTTGTTAAACCCTGTTTGGATTCATTCTAAGAGTTCTTTGAAGCCATTTTATGCTATTTTGCATAGGATTGATGTAGGAATTGTGATTGATTTAGAGCCAGCAAGAACGGAGGATCCTGCCCTTTCTATTGCTGGGGCAGTCCAATCGCAAAAGCTTGCAGTGCGTGCAATTTCTAAGCTACAAGCACTCCCTGGTGGAGATATTAAACTGTTGTGTGATACTGTGGTTGAGAGTGTTAGGGAGCTTACTGGATACGATCGAGTTATGGTGTATAAGTTTCACGAAGACGAGCACGGTGAGGTTGTAGCTGAAAGCAAGAGGCCTGACTTAGAGCCATACATTGGATTGCATTATCCTTCTACTGATATTCCTCAGGCATCGAGGTTTTTGTTTAAGCAAAACCGTGTTAGAATGATTGTCGATTGCCATGCTTCTCCAGTTCGTGTAATTCAGGCTGCAGGGCTTATGCAACCTCTTTGCTTAGTGGGTTCGACTCTTCGTGCTCCCCATGGCTGTCATTCTCAGTATATGGCCAATATGGGCTCCATTTCGTCGTTAGCAATGGCGGTTGTTATCAATAATAGCGACGACGAAGCTATTGGTGGGCGAAGTTCAACGAGGCTTTGGGGTTTGGTTGTTTGCCACCATACTTCGGCTCGGTGTATTCCGTTCCCTCTCCGGTATGCATGTGAGTTTCTAATGCAAGCATTTGGACTTCAACTTAATATGGAATTGCAATTGGCTTCACAGATGTCTGAGAAACATGTTTTGAGAACTCAAACTCTTTTATGTGACATGCTTCTTCGTGATTCCCCAACTGGCATTATTACTCAGAGTCCAAGCATCATGGACTTAGTAAAGTGTGATGGGGCAGCTCTTTACTATCAAGGGAAGTATTACCCTCTAGGCGTGACGCCAACCGAAGCCCAAATAAAGGACGTCGTGGAATGGTTGCTAGCTTTCCATGGAGATTCAACTGGTTTAAGTACAGATAGCTTGGCCGATGCTGGCTATCCAGGGGCAGCCTTGCTTGGTGGTGCAGTTTGTGGAATGGATGTTGCCTATATCACCAAAAGGGATTTTCTCTTCTGGTTCCGATCGCACACAGGAAAAGAGATCAAGTGGGGTGGCGCAAAGCATCACCCAGCGGATAAGGACGATGGTCAAAGAATGCATCCACGTTCTTCATTCAAGGCATTTTTAGAAGTAGTAAAATCCCGTAGTTTACCGTGGGAGACTGCAGAAATGGATGCTATTCACTCATTGCAGCTTATTCTTCGAGATTCATTCAAGGATAATGCTGCAATCAATTCGAAAGCCGTTGTGCATCCTCAACTAGGGGATCTCAACTTGCAAGGGATCGATGAGCTCAGCTTGGTTGCTAGAGAAATGGTCAGGTTGATCGAGACTGCAACTGCTCCAATCTTTGCTGTAGATGTCGACAGCCGTATCAATGGATGGAACGCTAAGATAGCCGAGTTGACTGGGCTTGCAGTCGAGGAAGCTATGGGGAAATCCCTAGTTCGTGATCTCGTGTATAAAGAATCTGAAGAAATAGTCGACAAACTCGTTTCCCGGGCTTTAAAAGGTGAAGAAGAAAAGAATATAGAGATAAAAATGAAGACATTTGGGCGAGATCCAGATGATCAAAGACAGCCAATTTTTGTGGCTGTCAATGCTTGTTCTAGCAGGGACTACACTGATAACATAGTAGGCGTTTGTTTTGTTGGTCAAGATCTTACCTGCCAAAAAGTGTTCATGGACAAATTTATTAGCATACAATGTGATTATAAAGCCATTGTTCATAGTCCCAGTCCTCTTATCCCTCCAATATTCGCTTCGGACGACAATACGTGTTGCTCGGAATGGAATACCGCCATGGAAAACCTCACCGGATGGTCCAGAGAAGACATAATAGGAAAAATGCTAGTAGGGGAGGTTTTTGGAGATTGTTGTAGACTGAAGGGGCCAGATGAATTGACCAAATTTATGATTGTCTTGCACGGTGCAATTGGAGGGAAGAACAATGAAAAATTCCCCTTTTCTTTTTATGACAAAAAGGGGAAATATGTGCAGGCTCTCTTGACAGCAAATAAGAGGATGAATATGGAGGGGCAGATTGTTGGAGCTTTCTGCTTTGTTCAAATTGCTAGTCTTGAATTGCAGCAAACTCTTAGAATGCAGAGGCAACAGGAGAAGAACCGGTTTGTAAGGATGAAAGAGCTGGCTTACATTTGCCAGGAAGTGAAGAGTCCTTTGAGTGGTATACGCTTTACTAACTCGCTTCTGGAGGCTACGGATTTGAGTGAAGATCAGAAGCAGTTTCTGGAGACCAGTGTTTCTTGTGAAAAGCAGATTACAATGGAGATTGAGAAGGGGGAGTTCTTACTGGGAAGTGTTATTAATGCTGTTGTTAGTCAAGCGATGTTACTACTCAGAGAAAGAAACTTACAACTGGTTCGTGATATACCAGAAGAAGTAAAGACTATGGCTGTATATGGCGATCAAGTGAGAATTCAACAGGTCTTAGCTGATTTCTTGTTGAACATGGTGCGTTACGCACCGTCTCCAGAAGGCTGGGTAGAATTACGTGTCTGTCCATTCCTGAAGCAAAACTCGGATCGACTTCGTCTCGCACACACCGAATTCAGGATTGTATGCCCTGGGGAAGGTCTACCTCCTGAGTTGATACAGGACATGTTTCACAGTGGCCGATGGGCGACTCAAGAAGGGTTAGGGTTGAGCATGTGCAGAAAGATTCTGAAGCTCATGAATGGTGAAGTCCAATACATCAGAGAATCTGAAAGATGTTATTTCTCGATCACTCTCGAACTCCCTTTAACAGAGAGAGCTCTCGGCAACATCGGTTAG 3363 44.16 MVSSNRGTNSHQQQAESSNTNTNTSHMRSNRTESISKAVAQYTIDARLHAVFEQSGESGKSFDYSQSIRTSTQSVPEQQITAYLSMIQRGGHIQPFGCMIAIDEENFRVIAYSENTRELLGLTPQSVPNLEKIEILTIGTDVRNLFTSNSAILLEKAFGAREITLLNPVWIHSKSSLKPFYAILHRIDVGIVIDLEPARTEDPALSIAGAVQSQKLAVRAISKLQALPGGDIKLLCDTVVESVRELTGYDRVMVYKFHEDEHGEVVAESKRPDLEPYIGLHYPSTDIPQASRFLFKQNRVRMIVDCHASPVRVIQAAGLMQPLCLVGSTLRAPHGCHSQYMANMGSISSLAMAVVINNSDDEAIGGRSSTRLWGLVVCHHTSARCIPFPLRYACEFLMQAFGLQLNMELQLASQMSEKHVLRTQTLLCDMLLRDSPTGIITQSPSIMDLVKCDGAALYYQGKYYPLGVTPTEAQIKDVVEWLLAFHGDSTGLSTDSLADAGYPGAALLGGAVCGMDVAYITKRDFLFWFRSHTGKEIKWGGAKHHPADKDDGQRMHPRSSFKAFLEVVKSRSLPWETAEMDAIHSLQLILRDSFKDNAAINSKAVVHPQLGDLNLQGIDELSLVAREMVRLIETATAPIFAVDVDSRINGWNAKIAELTGLAVEEAMGKSLVRDLVYKESEEIVDKLVSRALKGEEEKNIEIKMKTFGRDPDDQRQPIFVAVNACSSRDYTDNIVGVCFVGQDLTCQKVFMDKFISIQCDYKAIVHSPSPLIPPIFASDDNTCCSEWNTAMENLTGWSREDIIGKMLVGEVFGDCCRLKGPDELTKFMIVLHGAIGGKNNEKFPFSFYDKKGKYVQALLTANKRMNMEGQIVGAFCFVQIASLELQQTLRMQRQQEKNRFVRMKELAYICQEVKSPLSGIRFTNSLLEATDLSEDQKQFLETSVSCEKQITMEIEKGEFLLGSVINAVVSQAMLLLRERNLQLVRDIPEEVKTMAVYGDQVRIQQVLADFLLNMVRYAPSPEGWVELRVCPFLKQNSDRLRLAHTEFRIVCPGEGLPPELIQDMFHSGRWATQEGLGLSMCRKILKLMNGEVQYIRESERCYFSITLELPLTERALGNIG 1120
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 10988616 10994777 + CmoCh06G015600.1 Cmo06g01560 385122

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cmo06g01560 1120 Pfam Phytochrome region 422 597 IPR013515 GO:0006355|GO:0009584
Cmo06g01560 1120 TIGRFAM sensory_box: PAS domain S-box protein 631 745 IPR000014 -
Cmo06g01560 1120 SUPERFAMILY GAF domain-like 417 595 - -
Cmo06g01560 1120 SUPERFAMILY PYP-like sensor domain (PAS domain) 629 740 IPR035965 -
Cmo06g01560 1120 Gene3D PAS domain 773 885 - -
Cmo06g01560 1120 ProSiteProfiles Histidine kinase domain profile. 908 1113 IPR005467 -
Cmo06g01560 1120 ProSitePatterns Phytochrome chromophore attachment site signature. 331 340 IPR013516 -
Cmo06g01560 1120 Gene3D PAS domain 87 334 - -
Cmo06g01560 1120 Pfam PAS fold 760 879 IPR013767 GO:0006355
Cmo06g01560 1120 Pfam PAS fold 627 743 IPR013767 GO:0006355
Cmo06g01560 1120 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 961 1107 IPR036890 -
Cmo06g01560 1120 CDD HATPase_Phy-like 997 1109 IPR044767 -
Cmo06g01560 1120 CDD PAS 771 879 IPR000014 -
Cmo06g01560 1120 PRINTS Phytochrome signature 627 643 IPR001294 GO:0006355|GO:0009584
Cmo06g01560 1120 PRINTS Phytochrome signature 646 661 IPR001294 GO:0006355|GO:0009584
Cmo06g01560 1120 PRINTS Phytochrome signature 146 168 IPR001294 GO:0006355|GO:0009584
Cmo06g01560 1120 PRINTS Phytochrome signature 246 265 IPR001294 GO:0006355|GO:0009584
Cmo06g01560 1120 PRINTS Phytochrome signature 331 352 IPR001294 GO:0006355|GO:0009584
Cmo06g01560 1120 PRINTS Phytochrome signature 439 459 IPR001294 GO:0006355|GO:0009584
Cmo06g01560 1120 PRINTS Phytochrome signature 722 739 IPR001294 GO:0006355|GO:0009584
Cmo06g01560 1120 PRINTS Phytochrome signature 742 762 IPR001294 GO:0006355|GO:0009584
Cmo06g01560 1120 PRINTS Phytochrome signature 524 543 IPR001294 GO:0006355|GO:0009584
Cmo06g01560 1120 PRINTS Phytochrome signature 557 575 IPR001294 GO:0006355|GO:0009584
Cmo06g01560 1120 MobiDBLite consensus disorder prediction 1 32 - -
Cmo06g01560 1120 Gene3D - 212 570 IPR029016 -
Cmo06g01560 1120 SUPERFAMILY PYP-like sensor domain (PAS domain) 87 201 IPR035965 -
Cmo06g01560 1120 Gene3D PAS domain 617 753 - -
Cmo06g01560 1120 Gene3D - 951 1115 IPR036890 -
Cmo06g01560 1120 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 231 399 IPR016132 -
Cmo06g01560 1120 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 998 1109 IPR003594 -
Cmo06g01560 1120 SUPERFAMILY GAF domain-like 211 406 - -
Cmo06g01560 1120 CDD PAS 635 744 IPR000014 -
Cmo06g01560 1120 SMART gaf_1 231 419 IPR003018 GO:0005515
Cmo06g01560 1120 SMART HKATPase_4 998 1113 IPR003594 -
Cmo06g01560 1120 CDD HisKA 894 951 IPR003661 GO:0000155|GO:0007165
Cmo06g01560 1120 PIRSF Phytochrome_conventional 15 1117 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cmo06g01560 1120 SMART pas_2 759 829 IPR000014 -
Cmo06g01560 1120 SMART pas_2 626 693 IPR000014 -
Cmo06g01560 1120 ProSiteProfiles PAS repeat profile. 760 812 IPR000014 -
Cmo06g01560 1120 PANTHER TWO-COMPONENT HISTIDINE KINASE 8 1114 - -
Cmo06g01560 1120 Pfam GAF domain 231 409 IPR003018 GO:0005515
Cmo06g01560 1120 ProSiteProfiles PAS repeat profile. 624 695 IPR000014 -
Cmo06g01560 1120 SUPERFAMILY PYP-like sensor domain (PAS domain) 774 878 IPR035965 -
Cmo06g01560 1120 Pfam PAS fold 82 198 IPR013654 GO:0006355
Cmo06g01560 1120 PANTHER PHYTOCHROME 8 1114 - -
Cmo06g01560 1120 Gene3D - 414 587 IPR043150 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cmo06g01560 K12121 PHYB; phytochrome B - csv:101212197 2048.48
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cmo06g01560 Cmo14g01619 CST
       

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 Cmo06g01560 Cmo-Chr6:10988616 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
Vvi5g63 Blo01g00030 . . Bda08g00333 . . . Bma05g00993 . . Cma06g01564 Cma14g01590 Car06g01329 Car14g01399 Sed02g1136 Cpe08g00149 Cpe03g01327 Bhi01g01090 Tan10g1077 Cmetu06g1585 . Hepe05g1374 . Lcy11g1336 . . . . . . . Cone14ag0717 Cone15ag0729 . . Lsi05g01420 . . Cme06g00790 . Blo07g00144 Bda11g00500 . Bpe05g00798 Bpe13g00697 . Bma06g01466 . Cmo06g01560 Cmo14g01619 . . . . . . . . . . . . . Cla05g00707 Cam05g0774 Cec05g0782 Cco05g0775 Clacu05g0764 Cmu05g0730 Cre05g0804 . Csa03g01519 Chy06g00756 .
       

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
OG0004550 2 1 2 2 2 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 1 2 1 1 1 3 1 1 42
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cmo06g01560 Cmo_Chr06 FPKM 24.306681 25.239544 38.206062 39.900898 40.396545 33.406334 35.431431 53.751007 53.697235 50.310902
Cmo06g01560 Cmo_Chr00 FPKM 23.591837 28.418867 2.838774 4.471735 2.866015 3.24696 3.119457 8.033849 5.155532 7.410806