Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cme12g01234 ATGGACAAACTGAATCGGAGTTCCGATAAAGCAATGGCGGCTTCTTCTTCTGCCGACAGCAATACTAGGGCTCCTCCTCCTACTTCCACTAGTGCCGACTACAGACTTACTGCACTTGTTCAATACAATGTTGATGCTGGCCTTTTGAACAAGTTTGAGCTCTCCGATGCTTCTGGTGAGTCTTTTAACTATTCAAAATCAGTTCTTGAAGCTCCTGTCTCTGTTCCTGAAGAACAAATTACTGCCTATTTGTCTAAGATTCAAAGGGGTGGTTTGGTTCAACCATTCGGTTGTTTGCTTGCTATTGAAGAATCTAGTTTTAAGATTATTAGTTTTAGTGAGAATTGTTTTGAATTACTGGGCCTTAATGATGATCAATTTGGGTCGGCACAGGGGAAGAAGGGTCTGATTGGGGTTGATATGAGAGCTCTGTTAACGCCTTCCTCTGGTGCTTCTTTGGCCAAAGCGGCTTCTTCCAGGGAGATTTCTCTGTTGAACCCTGTTTGGGTTTATTCTAGGACTACCCAGAAGCCGTTTTATGCTATATTGCATAGAATTGATGTGGGGGTTGTTATTGATTTGGAGCCTGCACGGTCTGTTGATCCTGCATTGTCACTTGCTGGTGCTGTACAGTCACAGAAACTCGCGGTTAGAGCCATTTCCAGGTTGCAGGCTCTACCTAGTGGTGATATTGGTGTTCTTTGTGATACGGTTGTCGAAGATATTCAAAAGCTTACAGGGTATGATAGAGTGATGGTCTATAAGTTCCATGATGACGAACATGGTGAAGTAGTGTCAGAAATCAGAAGGTCTGACTTAGAGCCATACCTTGGTTTGCATTATCCTGCCATTGATATACCTCAAGCAGCACGTTTTTTGTTCAAACAGAACCGCATTAGGATGATTTGTGATTGCAATGCGAAGCTGGTGCCGATCATTCAAAGTGATGATCTAAAGCAGCCTCTTTGTTTGGTAAATTCAACACTAAGAGCACCACATAGCTGTCACTTGCAATACATGTCAAATATGAATACCTTAGCTTCATTAGTAATGGCAATAGTCATAAACAGTGATGAATCACCAACAAAGCTATGGGGTCTGGTAGTGTGTCACCATACTTCTCCTCGATATGTCCCTTTCCCACTTCGCTATGCCTGCGAGTTTCTCATGCAGGCGTTCAGGCTGCAGCTTTACATGGAACTTCAATTGGCATCACAATTAATAGAGAAAAAGATCCTCAAGACACAAACTTTACTTTGTGACATGCTTCTCCGAGGCTCCCCATGTGCATTGCTAACTCGGTCACCTAGTATAATGGATCTCGTGAAGTGTGATGGTGCTGCATTGTACTATAATGGGGCATGCTATTTCTTAGGTATAACTCCAACTGAAGCACAAGTCAAAGATCTTGCAGAGTGGATACTCAATAATCATGGGGATTCTACAGGGCTGAGCACAGATAGTTTGGCTGATGCTGGCTACCCTGAAGCTGTTTCACTAGCTGATGCAGTGTGTGGTATGGCAGCTGCAAGAATCGCTTCAAAGGATTTCTTATTCTGGTTCAGGTCCCATGTTGCAAAGGAAATTCAATGGGGAGGAGCCAAGCATCATCCAGACGATAAGGACGATAGTGGAAGAATGCACCCGAGATCATCGTTTAAAGCATTTCTTGAAGTTGCAAAGAGTAGAAGTTTCTCTTGGGAAGTTCAAGAAATAAATGCCATTCACTCATTGCAGCTTATAATGAGGGAGTCTTTTCCAAACACCAGGGACAGTAATTCAAAGGCAGAAAGTTCTTCCCAGTTGAGTGATGCTGAGATCCGGAATATCAATGAACTCAGTTCAGTAGCTTGTGAAATGGTTAGGGTGATTGAAACAGCAACCATACCAATTTTTGGGGTTGACTCAACTGGTTTGATCAATGGATGGAATGCTAAAATTTCTGAACTTGTGGGATTACATACTGGAGAAGCTCTGGGGAAATCTCTGGTTAATGAAATTGTTCATGAAGATTCACGTGGAACTGCAGAAGATTTACTTTCCTGTGCTCTGCAAGGTAAGGAAGACAAAAATGTGGAGTTGAAACTGAGAAGTTTTCGAACTGCTAAAGAGCACTCTAACGTGTATATTGTGGTTAACGCTTGCACAAGTAGAGATTACACAGACAAAGTTGTTGGAGTTTGCTTTGTTGGGCAAGATCTTACAACCGAGAAGGCTGTGATGGATAAATTTATCCGTTTGCAGGGAGATTATAAGACTATTATTGAAAGTCTGTGCCCATTGATTCCTCCAATGTTTGTTTCCGATGAGAATGGTTACTGCTATGAATGGACTGCAGCCATGGAAAAGCTTACTGGTTGGAGGAAAAATGAAGTTGTAGGAAAAATGCTAGCTGGGGAGATCTTTGGGAATTTCTGTAGATTGAAAGGTCTAGACACCCTCACTAGGTTCATGATTCTTTTATATCAAGGTATTAGTGGTCAAGTAACCGAAAAGTTTCCATTAGGATTTTTCAATAAGGATGGGAATTATGTAGATGTGTTGTTAACATCGAACAAGAGAACCGATGCCGAAGGAAAGGCCATTGGTTGTATCTGCTTCCTGCAAATTGTTGAGCCCAACTTACATGGGGTCTTGGAAGGACTTGGGACGGGTGATAGAGAGGCTGTTCTGCAGCATAAGGAGTTGAGCTTCTTAAAGCACGAGATGAAAAATCCTTTAAATGGCCTCAGATTTACGCATGAACTCCTTGTAAACTCTGGCGTTACTGAAAACCAGAAACTTTTCCTTGATACTAGTGATGCATGTGAGAGACAAATCATGACAATCATAGAGGATATGGACTTCAGAAGATTAGAAGAGGGAAAGTCATTCCAAATAGACGTCGAGTCTATATTGCATGACGCGCAAACAATTATGCCTCACCTGCGGGAGAAGTTGCTGTTCCACAAAGTGCACATTATCTTAGCCTCGATTGGACCTGAATTATCAATGATCTTCCAAGTAGAGATCAACAGACAAGACTTTCTCCTCGGGAGTGTTCTGGATGCCATTATCTGTCAAATCATGATCGTTGTCCGAGAGAGGAACATTCAACTTTTTCATGAAATTCCAGAAGAAATCAAAACGTTAACTCTTTGTGGCGACCAAATTAAGCTTCAGATGGTTTTATCAGATTTCTTACTTAACATAGTGCAGTACGCGCCTGTTCAGGATGGTTGGGTTGAAATCAAAATTTCTTCTGGTTTGAAGCTTATACAAGATGGAAATGAGCATATTCACTTGCAGATCAGAATGTCACATCCAGGTCAAGGTTTGCCTCATGAACTAATCCAAGATATGGTTGGAGGAGGACAACAGTGGACTTCAGAACAAGGCTTGGCCCTAAACCTGTCACGTAGACTTCTTAATAAATTGAACGGTAATGTCCGCTATGTTAGAGAGCAAACCAAATGCTACTTCCTCATCGACCTCGAACTCAAGTTAAGGCGCTCGAGGGGGTTAATGGAAGCTATTACGGGCCAAAGGACTTGA 3534 42.13 MDKLNRSSDKAMAASSSADSNTRAPPPTSTSADYRLTALVQYNVDAGLLNKFELSDASGESFNYSKSVLEAPVSVPEEQITAYLSKIQRGGLVQPFGCLLAIEESSFKIISFSENCFELLGLNDDQFGSAQGKKGLIGVDMRALLTPSSGASLAKAASSREISLLNPVWVYSRTTQKPFYAILHRIDVGVVIDLEPARSVDPALSLAGAVQSQKLAVRAISRLQALPSGDIGVLCDTVVEDIQKLTGYDRVMVYKFHDDEHGEVVSEIRRSDLEPYLGLHYPAIDIPQAARFLFKQNRIRMICDCNAKLVPIIQSDDLKQPLCLVNSTLRAPHSCHLQYMSNMNTLASLVMAIVINSDESPTKLWGLVVCHHTSPRYVPFPLRYACEFLMQAFRLQLYMELQLASQLIEKKILKTQTLLCDMLLRGSPCALLTRSPSIMDLVKCDGAALYYNGACYFLGITPTEAQVKDLAEWILNNHGDSTGLSTDSLADAGYPEAVSLADAVCGMAAARIASKDFLFWFRSHVAKEIQWGGAKHHPDDKDDSGRMHPRSSFKAFLEVAKSRSFSWEVQEINAIHSLQLIMRESFPNTRDSNSKAESSSQLSDAEIRNINELSSVACEMVRVIETATIPIFGVDSTGLINGWNAKISELVGLHTGEALGKSLVNEIVHEDSRGTAEDLLSCALQGKEDKNVELKLRSFRTAKEHSNVYIVVNACTSRDYTDKVVGVCFVGQDLTTEKAVMDKFIRLQGDYKTIIESLCPLIPPMFVSDENGYCYEWTAAMEKLTGWRKNEVVGKMLAGEIFGNFCRLKGLDTLTRFMILLYQGISGQVTEKFPLGFFNKDGNYVDVLLTSNKRTDAEGKAIGCICFLQIVEPNLHGVLEGLGTGDREAVLQHKELSFLKHEMKNPLNGLRFTHELLVNSGVTENQKLFLDTSDACERQIMTIIEDMDFRRLEEGKSFQIDVESILHDAQTIMPHLREKLLFHKVHIILASIGPELSMIFQVEINRQDFLLGSVLDAIICQIMIVVRERNIQLFHEIPEEIKTLTLCGDQIKLQMVLSDFLLNIVQYAPVQDGWVEIKISSGLKLIQDGNEHIHLQIRMSHPGQGLPHELIQDMVGGGQQWTSEQGLALNLSRRLLNKLNGNVRYVREQTKCYFLIDLELKLRRSRGLMEAITGQRT 1177
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
12 20494555 20501916 + MELO3C002705.2.1 Cme12g01234 344451

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cme12g01234 1177 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1048 1158 IPR003594 -
Cme12g01234 1177 SMART gaf_1 230 411 IPR003018 GO:0005515
Cme12g01234 1177 CDD HATPase_Phy-like 1048 1160 IPR044767 -
Cme12g01234 1177 Pfam PAS fold 82 197 IPR013654 GO:0006355
Cme12g01234 1177 Pfam PAS fold 750 869 IPR013767 GO:0006355
Cme12g01234 1177 Pfam PAS fold 619 733 IPR013767 GO:0006355
Cme12g01234 1177 SUPERFAMILY GAF domain-like 210 397 - -
Cme12g01234 1177 Gene3D - 1001 1165 IPR036890 -
Cme12g01234 1177 ProSiteProfiles PAC domain profile. 690 746 IPR000700 -
Cme12g01234 1177 Gene3D PAS domain 86 333 - -
Cme12g01234 1177 Pfam His Kinase A (phospho-acceptor) domain 896 955 IPR003661 GO:0000155|GO:0007165
Cme12g01234 1177 SUPERFAMILY PYP-like sensor domain (PAS domain) 764 868 IPR035965 -
Cme12g01234 1177 CDD PAS 627 734 IPR000014 -
Cme12g01234 1177 SUPERFAMILY PYP-like sensor domain (PAS domain) 87 198 IPR035965 -
Cme12g01234 1177 PANTHER TWO-COMPONENT HISTIDINE KINASE 1007 1166 - -
Cme12g01234 1177 PIRSF Phytochrome_conventional 983 1169 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cme12g01234 1177 PIRSF Phytochrome_conventional 12 974 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cme12g01234 1177 CDD HisKA 896 947 IPR003661 GO:0000155|GO:0007165
Cme12g01234 1177 SMART HisKA_10 891 955 IPR003661 GO:0000155|GO:0007165
Cme12g01234 1177 TIGRFAM sensory_box: PAS domain S-box protein 623 738 IPR000014 -
Cme12g01234 1177 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 230 391 IPR016132 -
Cme12g01234 1177 ProSiteProfiles PAS repeat profile. 747 802 IPR000014 -
Cme12g01234 1177 MobiDBLite consensus disorder prediction 9 30 - -
Cme12g01234 1177 Gene3D PAS domain 764 874 - -
Cme12g01234 1177 ProSiteProfiles PAS repeat profile. 616 687 IPR000014 -
Cme12g01234 1177 Gene3D - 211 562 IPR029016 -
Cme12g01234 1177 MobiDBLite consensus disorder prediction 1 30 - -
Cme12g01234 1177 CDD PAS 761 869 IPR000014 -
Cme12g01234 1177 SUPERFAMILY PYP-like sensor domain (PAS domain) 622 730 IPR035965 -
Cme12g01234 1177 PANTHER PHYTOCHROME E 36 967 - -
Cme12g01234 1177 ProSiteProfiles Histidine kinase domain profile. 898 1162 IPR005467 -
Cme12g01234 1177 Pfam Phytochrome region 414 588 IPR013515 GO:0006355|GO:0009584
Cme12g01234 1177 PANTHER PHYTOCHROME E 1007 1166 - -
Cme12g01234 1177 Pfam GAF domain 230 401 IPR003018 GO:0005515
Cme12g01234 1177 SMART HKATPase_4 1048 1160 IPR003594 -
Cme12g01234 1177 Gene3D - 406 579 IPR043150 -
Cme12g01234 1177 PRINTS Phytochrome signature 330 351 IPR001294 GO:0006355|GO:0009584
Cme12g01234 1177 PRINTS Phytochrome signature 431 451 IPR001294 GO:0006355|GO:0009584
Cme12g01234 1177 PRINTS Phytochrome signature 245 264 IPR001294 GO:0006355|GO:0009584
Cme12g01234 1177 PRINTS Phytochrome signature 732 752 IPR001294 GO:0006355|GO:0009584
Cme12g01234 1177 PRINTS Phytochrome signature 619 635 IPR001294 GO:0006355|GO:0009584
Cme12g01234 1177 PRINTS Phytochrome signature 712 729 IPR001294 GO:0006355|GO:0009584
Cme12g01234 1177 PRINTS Phytochrome signature 516 535 IPR001294 GO:0006355|GO:0009584
Cme12g01234 1177 PRINTS Phytochrome signature 638 653 IPR001294 GO:0006355|GO:0009584
Cme12g01234 1177 PRINTS Phytochrome signature 145 167 IPR001294 GO:0006355|GO:0009584
Cme12g01234 1177 PRINTS Phytochrome signature 549 567 IPR001294 GO:0006355|GO:0009584
Cme12g01234 1177 PANTHER TWO-COMPONENT HISTIDINE KINASE 36 967 - -
Cme12g01234 1177 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 1004 1151 IPR036890 -
Cme12g01234 1177 ProSitePatterns Phytochrome chromophore attachment site signature. 330 339 IPR013516 -
Cme12g01234 1177 SUPERFAMILY GAF domain-like 409 586 - -
Cme12g01234 1177 SMART pas_2 618 685 IPR000014 -
Cme12g01234 1177 SMART pas_2 749 819 IPR000014 -
Cme12g01234 1177 Gene3D PAS domain 617 739 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cme12g01234 K12123 PHYE; phytochrome E - csv:101214900 2090.08
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cme06g00790 Cme-Chr6:5236998 Cme12g01234 Cme-Chr12:20494555 0 dispersed
       

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
Cme06g02373 . 31 1197 Histidine Kinase Gene Family AT2G17820 64.7 0.0e+00 1417.5
Cme09g01302 CCT 24 987 Histidine Kinase Gene Family AT2G01830 72.3 0.0e+00 1333.2
Cme10g01141 . 20 1022 Histidine Kinase Gene Family AT2G01830 65.4 0.0e+00 1279.2
Cme11g00934 . 305 1259 Histidine Kinase Gene Family AT2G01830 52.4 1.4e-271 932.9
Cme11g02319 . 8 846 Histidine Kinase Gene Family AT2G01830 54.1 9.8e-249 857.1
Cme07g00153 . 1 985 Histidine Kinase Gene Family AT5G10720 57.8 5.9e-290 993.8
Cme03g01314 . 46 1165 Histidine Kinase Gene Family AT1G09570 79.9 0.0e+00 1830.8
Cme03g01317 . 3 1148 Histidine Kinase Gene Family AT1G09570 71.2 0.0e+00 1633.6
Cme01g00552 . 18 1083 Histidine Kinase Gene Family AT1G09570 54.4 0.0e+00 1183.7
Cme06g00790 . 34 1103 Histidine Kinase Gene Family AT1G09570 54.9 0.0e+00 1181.4
Cme06g00790 . 13 1062 Histidine Kinase Gene Family AT2G18790 79.1 0.0e+00 1671.0
Cme12g01234 . 38 1098 Histidine Kinase Gene Family AT2G18790 56.6 0.0e+00 1201.8
Cme03g01314 . 66 1099 Histidine Kinase Gene Family AT2G18790 52.9 0.0e+00 1080.5
Cme03g01317 . 22 1051 Histidine Kinase Gene Family AT2G18790 52.0 7.4e-311 1063.5
Cme01g00552 . 26 1040 Histidine Kinase Gene Family AT2G18790 51.8 2.2e-307 1052.0
Cme01g00552 . 18 1087 Histidine Kinase Gene Family AT5G35840 61.0 0.0e+00 1333.2
Cme06g00790 . 21 1112 Histidine Kinase Gene Family AT5G35840 53.0 0.0e+00 1138.3
Cme03g01314 . 54 1159 Histidine Kinase Gene Family AT5G35840 51.7 0.0e+00 1114.8
Cme06g00790 . 3 1102 Histidine Kinase Gene Family AT4G16250 76.1 0.0e+00 1685.6
Cme12g01234 . 38 1160 Histidine Kinase Gene Family AT4G16250 55.3 0.0e+00 1246.1
Cme03g01314 . 53 1160 Histidine Kinase Gene Family AT4G16250 52.5 0.0e+00 1132.1
Cme01g00552 . 26 1086 Histidine Kinase Gene Family AT4G16250 52.0 0.0e+00 1092.4
Cme12g01234 . 15 1161 Histidine Kinase Gene Family AT4G18130 60.3 0.0e+00 1354.0
Cme06g00790 . 38 1115 Histidine Kinase Gene Family AT4G18130 58.7 0.0e+00 1253.0
       

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
Cme12g01234 Cme_Chr12 FPKM 19.08326 20.582045 27.473591 29.51465 38.961227 34.283134 39.339554 26.662552 26.293064 28.441916