Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma13g00567 ATGGAGAACAATCGGGGAGGAATGGCGGCGTTTTCGTCCTCGGCGGAAAGCAATATCAGGGCTCGACCGAGCAACACCGCTAGCACCGACAACAGAGCTGCGGCACTTGTGCAATACAATGCTGATGCTGGGCTTTTGAACAAGTTTGAGCAATCGGACGCCTTTGGTGAGTCTTTTAACTATTCGAGATCAGTTCTTGAAGCTCCACAGTCTGTACCCGAAGAACAAATTACTGCCTATCTGTCTAAGATTCAGAGGGGTGGAATGGTTCAACCGTTTGGTTGTTTGCTTGCGATTGAAGAATCTAGTCTTAAGATTATTAGCTACAGTGAGAATTGTTTTGACTTATTGGGGATAAATGATCAGTTTGAGTCGGCACCGGGGAAGGGTCTAATTGGGGTTCATATAAGAGCTCTGTTTACGCCTTCCTCCGGTGCTTCTTTGGCGAAAGCTGCTTCATCCAGGGAGATTTCGCTGTTGAATCCTGTTTGGGTTTATTCTAGGAATACCCAGAAGCCATTTTATGCCATATTGCATAGGATTGATGTGGGGATTGTAATTGATTTGGAGCCTGCACGGTCTGTTGATCCTGCACTGTCGCTTGCCGGCGCCGTGCATTCGCAGAAACTTGCAGTTCGAGCCATTTCCAGGTTGCAGGCTCTACCTGGTGGTGATATTGGTGTTTTATGTGATACGGTTGTGGAAGATGTTCAGAAGCTTACAGGGTATGATAGAGTGATGGTGTATAAGTTCCATGATGATGAACATGGTGAAGTAGTGTCAGAAATCAGAAGGTCGGACTTGGAGCCATATCTCGGTTTGCACTATCCTGCCATTGATATACCCCAAGCTGCTCGTTTCTTGTTCAAGCAGAACCGCGTTAGGATGATTTGCGATTGCCATGCGAAGCCTGTGCAGGTCATTCAAAGTGATGAGCTAAAGCAGCCTCTTTGTTTGGTTAATTCAACACTTCGATCACCACATAGTTGTCATTTGCAGTACATGGCAAATATGGGTTCCATAGCCTCATTGGCAATGGCAGTAATCATGAACAGTGATGACTCTCCAACAAGGTTATGGGGCCTGGTAGTGTGCCACCATACTTCACCACGATATGTCCCTTTCCCACTTCGTTATGCTTGCGAGTTTCTCATGCAGGCTTTCGGGCTGCAACTTTACATGGAGCTTCAATTGGCATTACAAATAACAGAGAAAAAGGTTCTCAAGACACAAACCTTACTCTGTGACATGCTCCTCCGAGGCTCCCCTTATGCATTGCTGACCCAGTCACCTAGTATAAAGGATCTCGTGAAGTGTGATGGCGCTGCATTGTACTATCAGGGGGCATGTTGTCTACTAGGTGTAACTCCAACTGAAGCCCAAGTTAAAAACCTTGTCGAGTGGATACTCAATAACCATGGAGATTCTACAGGACTGAGCACGGATAGCTTGGCTGATGCTGGCTATCCCGAAGCTGCTTCACTAGGTGATGCAATATGTGGTATGACTGCTGCAAGAATTAGTTCAAAAGATTTCTTATTCTGGTTCCGTTCCCATGCCGCAAAAGAAATCCAATGGGGAGGAGCCAAGCATCATCCAGATGATAAGGATGATGGTGGAAGAATGCACCCAAGGTCATCATTTAAAGCATTTCTTGAAGTTGCAAAGAGTAAAAGTATGTCATGGGAAGCTCAAGAAATAAATGCCATTCACTCATTGCAGCTTATTATGAGGGAGTCTTTCTCGAGCGCTAGAGACAGTGATTCGAAGGCAGAAATGTCTGTCCAGCAGAGTGATACTGTGTCTCAGGACATCGGCGAACTCAGTTCAGTAGCTTGTGAAATGGTTAGGTTGATTGAAACAGCAACCGTTCCAATTTTTGGGGTTGACTCAACTGGTGTGATCAATGGATGGAATGCTAAAATAGCTGAACTCGTAGGATTACAAACTGGAGAAGCTTTGGGGAGATCTCTGGATGACATCGTTCATGATGATTCACGAGGAACCGTTGGAAATTTACTTCTTCATGCTCTGCAAGGTGTGGAAGACAAAAATGTGGAGTTAAAACTGAGAAAGTTTGGAACTGATAAAGAAAACTCTGCTGTGTATATTGTAGTTAATGCTTGCACAAGTAGGCATTACACAAATAAAGTTATTGGGGTTTGCTTTGTTGGGCAAGATATAACGTCGGAGAAAGGCGTGAGGGATAGATTTATCCGTCTGCAGGGAGATTATAGGACAATCATTGAAAGTCTGAGTCCATTGATTCCACCAATTTTCGTTTCTGACGAGAATGGTTACTGCTGTGAATGGACTGCTGCCATGGAGAAGCTTTCTGGTTGGAGTAAAGATGAAGTTGTAGGAAAAATGCTAGTAGGGGAGATTTTTGGGAACTTCTGTAGGTTGAAAGATCTAGATACCCTCACTAGGTTTATGATCCTATTATATCAAGGTATTGGTGGTGAACAAACTGAGAAGTTTCCATTAGGATTTTTCAATAAGAATGGTGACTATGTGGAGGTGCTTTTAACATCAAACAAAAGGACTGATGCAGAAGGAAATGTCATTGGTTGTATCTGTTTCCTGCAAGTTGTTGAGCCGAACTTGCAAGGGGTCTCTGAAGGACTCGGCCTGGGCGAAAGACGGGGCAATTTGCAGCTTAAGGAGTTGACTTACTTAAAGCGGGAGATGAAAAATCCTTTAAATGGCATCAAATTTACTCATGAACTCCTTGTAAATTCTGGCATTACAGACAACCAGAAACTCTTCCTTGTTACTAGTGATGCGTGCGAGAGACAGATCATGGCAATCATTGAGGATATGGACTTCAGAAGTTTAGAAGTGGGCCAAGTACAGATAAATAAAGACGAGTTTGTCCTTGGGAGTGTTCTGGATGCCATTATCTGTCAAATCATGATTGTTGTCAGAGAGAAGAACATACAACTGTTTCATGAAATTCCAGAAGAAATCAAAGTGTTAACTTTTTGTGGCGATCAAATTAAACTTCAGCTGGTTTTATCAGATTTCTTACTTAGCGTAGTGCAGAACACGCCTGCTCTGGATGGTTGGGTTGAAATCAAAATTTCAGCTGGTTTGAAGCTTATACAAGATGGAAATGAACATATTCACTTGCAGATCAGAATGTCACATCCAGGTCAAGGTCTGCCTCCTGAACTAATCCAAGATGTGGTTGGAGGAGGACAACAGTGGAGTTCAGAGCAAGGCCTCGCCCTAAATCTGTCACGCAGACTTCTCAATAAATTGAACGGTAATGTCTGCTACGTTAGAGAGCAAACTAAATGCTACTTCCTCATTGATCTCGAACTCAAATTAAGGCGCTCGAGGGGGTTGCTGGAAGCCACTACAAGCCAAAGAACTTGA 3381 43.74 MENNRGGMAAFSSSAESNIRARPSNTASTDNRAAALVQYNADAGLLNKFEQSDAFGESFNYSRSVLEAPQSVPEEQITAYLSKIQRGGMVQPFGCLLAIEESSLKIISYSENCFDLLGINDQFESAPGKGLIGVHIRALFTPSSGASLAKAASSREISLLNPVWVYSRNTQKPFYAILHRIDVGIVIDLEPARSVDPALSLAGAVHSQKLAVRAISRLQALPGGDIGVLCDTVVEDVQKLTGYDRVMVYKFHDDEHGEVVSEIRRSDLEPYLGLHYPAIDIPQAARFLFKQNRVRMICDCHAKPVQVIQSDELKQPLCLVNSTLRSPHSCHLQYMANMGSIASLAMAVIMNSDDSPTRLWGLVVCHHTSPRYVPFPLRYACEFLMQAFGLQLYMELQLALQITEKKVLKTQTLLCDMLLRGSPYALLTQSPSIKDLVKCDGAALYYQGACCLLGVTPTEAQVKNLVEWILNNHGDSTGLSTDSLADAGYPEAASLGDAICGMTAARISSKDFLFWFRSHAAKEIQWGGAKHHPDDKDDGGRMHPRSSFKAFLEVAKSKSMSWEAQEINAIHSLQLIMRESFSSARDSDSKAEMSVQQSDTVSQDIGELSSVACEMVRLIETATVPIFGVDSTGVINGWNAKIAELVGLQTGEALGRSLDDIVHDDSRGTVGNLLLHALQGVEDKNVELKLRKFGTDKENSAVYIVVNACTSRHYTNKVIGVCFVGQDITSEKGVRDRFIRLQGDYRTIIESLSPLIPPIFVSDENGYCCEWTAAMEKLSGWSKDEVVGKMLVGEIFGNFCRLKDLDTLTRFMILLYQGIGGEQTEKFPLGFFNKNGDYVEVLLTSNKRTDAEGNVIGCICFLQVVEPNLQGVSEGLGLGERRGNLQLKELTYLKREMKNPLNGIKFTHELLVNSGITDNQKLFLVTSDACERQIMAIIEDMDFRSLEVGQVQINKDEFVLGSVLDAIICQIMIVVREKNIQLFHEIPEEIKVLTFCGDQIKLQLVLSDFLLSVVQNTPALDGWVEIKISAGLKLIQDGNEHIHLQIRMSHPGQGLPPELIQDVVGGGQQWSSEQGLALNLSRRLLNKLNGNVCYVREQTKCYFLIDLELKLRRSRGLLEATTSQRT 1126
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
13 5738467 5745279 + CmaCh13G005670.1 Cma13g00567 306394

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma13g00567 1126 TIGRFAM sensory_box: PAS domain S-box protein 745 862 IPR000014 -
Cma13g00567 1126 TIGRFAM sensory_box: PAS domain S-box protein 618 734 IPR000014 -
Cma13g00567 1126 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 225 386 IPR016132 -
Cma13g00567 1126 Pfam Phytochrome region 409 583 IPR013515 GO:0006355|GO:0009584
Cma13g00567 1126 Pfam PAS fold 79 192 IPR013654 GO:0006355
Cma13g00567 1126 SUPERFAMILY PYP-like sensor domain (PAS domain) 617 724 IPR035965 -
Cma13g00567 1126 Gene3D PAS domain 757 867 - -
Cma13g00567 1126 ProSiteProfiles PAS repeat profile. 744 796 IPR000014 -
Cma13g00567 1126 CDD PAS 622 728 IPR000014 -
Cma13g00567 1126 SUPERFAMILY PYP-like sensor domain (PAS domain) 84 193 IPR035965 -
Cma13g00567 1126 PANTHER PHYTOCHROME E 31 1115 - -
Cma13g00567 1126 SMART pas_2 743 813 IPR000014 -
Cma13g00567 1126 SMART pas_2 613 679 IPR000014 -
Cma13g00567 1126 SUPERFAMILY GAF domain-like 404 581 - -
Cma13g00567 1126 ProSiteProfiles PAC domain profile. 684 740 IPR000700 -
Cma13g00567 1126 MobiDBLite consensus disorder prediction 1 27 - -
Cma13g00567 1126 SMART gaf_1 225 406 IPR003018 GO:0005515
Cma13g00567 1126 Gene3D - 928 1102 IPR036890 -
Cma13g00567 1126 ProSiteProfiles PAS repeat profile. 611 681 IPR000014 -
Cma13g00567 1126 Gene3D PAS domain 612 732 - -
Cma13g00567 1126 SMART HisKA_10 885 949 IPR003661 GO:0000155|GO:0007165
Cma13g00567 1126 Gene3D - 206 557 IPR029016 -
Cma13g00567 1126 Gene3D PAS domain 83 328 - -
Cma13g00567 1126 CDD PAS 755 865 IPR000014 -
Cma13g00567 1126 ProSiteProfiles Histidine kinase domain profile. 892 1111 IPR005467 -
Cma13g00567 1126 Gene3D - 401 574 IPR043150 -
Cma13g00567 1126 SMART HKATPase_4 997 1109 IPR003594 -
Cma13g00567 1126 SUPERFAMILY PYP-like sensor domain (PAS domain) 746 860 IPR035965 -
Cma13g00567 1126 PANTHER TWO-COMPONENT HISTIDINE KINASE 31 1115 - -
Cma13g00567 1126 ProSitePatterns Phytochrome chromophore attachment site signature. 325 334 IPR013516 -
Cma13g00567 1126 Pfam GAF domain 225 396 IPR003018 GO:0005515
Cma13g00567 1126 SUPERFAMILY GAF domain-like 207 392 - -
Cma13g00567 1126 CDD HisKA 896 945 IPR003661 GO:0000155|GO:0007165
Cma13g00567 1126 PRINTS Phytochrome signature 140 162 IPR001294 GO:0006355|GO:0009584
Cma13g00567 1126 PRINTS Phytochrome signature 240 259 IPR001294 GO:0006355|GO:0009584
Cma13g00567 1126 PRINTS Phytochrome signature 325 346 IPR001294 GO:0006355|GO:0009584
Cma13g00567 1126 PRINTS Phytochrome signature 426 446 IPR001294 GO:0006355|GO:0009584
Cma13g00567 1126 PRINTS Phytochrome signature 511 530 IPR001294 GO:0006355|GO:0009584
Cma13g00567 1126 PRINTS Phytochrome signature 544 562 IPR001294 GO:0006355|GO:0009584
Cma13g00567 1126 PRINTS Phytochrome signature 614 630 IPR001294 GO:0006355|GO:0009584
Cma13g00567 1126 PRINTS Phytochrome signature 633 648 IPR001294 GO:0006355|GO:0009584
Cma13g00567 1126 PRINTS Phytochrome signature 706 723 IPR001294 GO:0006355|GO:0009584
Cma13g00567 1126 PRINTS Phytochrome signature 726 746 IPR001294 GO:0006355|GO:0009584
Cma13g00567 1126 PIRSF Phytochrome_conventional 11 1117 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cma13g00567 1126 Pfam PAS fold 614 728 IPR013767 GO:0006355
Cma13g00567 1126 Pfam PAS fold 744 864 IPR013767 GO:0006355
Cma13g00567 1126 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 954 1099 IPR036890 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma13g00567 K12123 PHYE; phytochrome E - csv:101214900 1913.27
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cma13g00567 Cma18g00452 CST
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma13g00567 Cma-Chr13:5738467 Cma14g01590 Cma-Chr14:11927099 0 dispersed
Cma13g00567 Cma-Chr13:5738467 Cma18g00452 Cma-Chr18:2495903 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
Cma06g00120 . 5 1218 Histidine Kinase Gene Family AT2G17820 63.3 0.0e+00 1425.2
Cma16g01243 . 102 1255 Histidine Kinase Gene Family AT2G17820 64.9 0.0e+00 1414.8
Cma04g00016 . 28 1012 Histidine Kinase Gene Family AT2G01830 70.5 0.0e+00 1325.8
Cma15g00887 CST 20 979 Histidine Kinase Gene Family AT2G01830 72.0 0.0e+00 1303.5
Cma04g02142 CST 23 992 Histidine Kinase Gene Family AT2G01830 69.8 0.0e+00 1276.9
Cma17g01443 . 102 1060 Histidine Kinase Gene Family AT2G01830 52.7 7.7e-276 947.6
Cma11g01285 . 280 1223 Histidine Kinase Gene Family AT2G01830 53.8 1.9e-274 943.0
Cma20g00673 . 302 1245 Histidine Kinase Gene Family AT2G01830 52.9 7.7e-268 921.0
Cma08g00179 . 51 983 Histidine Kinase Gene Family AT2G01830 52.5 3.8e-267 918.7
Cma02g00221 . 329 1267 Histidine Kinase Gene Family AT2G01830 50.7 7.8e-260 894.4
Cma01g01683 CCT 1 992 Histidine Kinase Gene Family AT5G10720 57.2 4.8e-290 994.6
Cma09g00387 CCT 1 996 Histidine Kinase Gene Family AT5G10720 56.2 2.0e-288 989.2
Cma05g00948 . 1 1120 Histidine Kinase Gene Family AT1G09570 79.4 0.0e+00 1817.7
Cma12g00705 . 1 1114 Histidine Kinase Gene Family AT1G09570 71.0 0.0e+00 1617.8
Cma19g00854 . 18 1087 Histidine Kinase Gene Family AT1G09570 53.8 0.0e+00 1171.0
Cma14g01590 CST 35 1078 Histidine Kinase Gene Family AT1G09570 53.6 0.0e+00 1155.2
Cma06g01564 CST 29 1123 Histidine Kinase Gene Family AT1G09570 52.5 0.0e+00 1155.2
Cma14g01590 CST 13 1041 Histidine Kinase Gene Family AT2G18790 77.1 0.0e+00 1620.1
Cma06g01564 CST 28 1064 Histidine Kinase Gene Family AT2G18790 77.2 0.0e+00 1610.9
Cma13g00567 CST 3 1047 Histidine Kinase Gene Family AT2G18790 59.2 0.0e+00 1227.6
Cma18g00452 CST 31 1051 Histidine Kinase Gene Family AT2G18790 59.3 0.0e+00 1224.5
Cma05g00948 . 21 1054 Histidine Kinase Gene Family AT2G18790 53.4 0.0e+00 1087.0
Cma19g00854 . 26 1068 Histidine Kinase Gene Family AT2G18790 51.9 1.4e-313 1073.2
Cma12g00705 . 18 1048 Histidine Kinase Gene Family AT2G18790 50.8 6.5e-305 1044.3
Cma19g00854 . 12 1087 Histidine Kinase Gene Family AT5G35840 61.2 0.0e+00 1334.7
Cma06g01564 CST 29 1125 Histidine Kinase Gene Family AT5G35840 51.7 0.0e+00 1120.1
Cma05g00948 . 9 1114 Histidine Kinase Gene Family AT5G35840 51.8 0.0e+00 1111.7
Cma14g01590 CST 21 1080 Histidine Kinase Gene Family AT5G35840 50.8 0.0e+00 1092.8
Cma12g00705 . 9 1105 Histidine Kinase Gene Family AT5G35840 50.6 0.0e+00 1080.9
Cma06g01564 CST 32 1125 Histidine Kinase Gene Family AT4G16250 74.3 0.0e+00 1649.0
Cma14g01590 CST 30 1080 Histidine Kinase Gene Family AT4G16250 74.2 0.0e+00 1616.3
Cma13g00567 CST 29 1109 Histidine Kinase Gene Family AT4G16250 57.6 0.0e+00 1261.9
Cma18g00452 CST 38 1113 Histidine Kinase Gene Family AT4G16250 57.6 0.0e+00 1257.7
Cma05g00948 . 8 1115 Histidine Kinase Gene Family AT4G16250 53.1 0.0e+00 1137.1
Cma12g00705 . 11 1109 Histidine Kinase Gene Family AT4G16250 50.5 0.0e+00 1082.8
Cma19g00854 . 26 1087 Histidine Kinase Gene Family AT4G16250 51.5 1.9e-312 1069.3
Cma13g00567 CST 12 1110 Histidine Kinase Gene Family AT4G18130 62.9 0.0e+00 1367.8
Cma18g00452 CST 15 1130 Histidine Kinase Gene Family AT4G18130 61.5 0.0e+00 1356.3
Cma06g01564 CST 40 1123 Histidine Kinase Gene Family AT4G18130 57.2 0.0e+00 1244.6
Cma14g01590 CST 38 1078 Histidine Kinase Gene Family AT4G18130 57.3 0.0e+00 1215.3
       

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
Cma13g00567 Cma_Chr13 FPKM 0.471749 0.370272 2.985001 2.974685 8.279196 7.540102 8.026507 3.171554 2.610543 3.126688