Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cme06g00790 ATGGTTTCTAGTAATCGAGCAACTCATTCTCATCAACAACAAGCACAGTCTTCGAACACGAATACGAGCAATTTGCGATCTCATCGTACAGATTCCATCAGCAAAGCTATAGCGCAGTACACAGTCGATGCTCGTCTCCACGCGGTGTTCGAGCAGTCAGGTGAGTCTGGAAAATCTTTTGACTACTCACAATCTATAAGAACTTCGACTCAATCTGTGCCGGAGCAGCAAATTACTGCTTATTTGTCGAAGATTCAAAGGGGTGGTCATATCCAGCCCTTTGGATGTATGATAGCTATAGAAGAGGCTAGTTTTCGAGTTATTGCATACAGTGAAAACGCTAGGGAATTGCTTGGTCTGACGCCTCAATCAGTGCCAAGTCTTGAAAAGCCTGAGATCCTTACAATTGGGACTGATGTACGCAACTTGTTCACTTCCAATAGTGCAATTCTACTAGAGAAGGCGTTTGGGGCTCGAGAAATCACTTTGTTGAACCCAGTTTGGATTCATTCCAAGAATTCTGGGAAGCCCTTTTATGCAATTTTGCATAGGATTGATGTGGGAATTGTGATTGATTTGGAGCCTGCAAGAACGGAGGATCCTGCCCTTTCTATTGCTGGAGCAGTACAATCGCAGAAGCTTGCGGTACGTGCAATTTCTCAGTTACAAGCACTCCCTGGTGGAGATATTAAACTGTTGTGTGATACTGTGGTTGAGAGTGTTAGGGAGCTTACTGGATATGATAGAGTTATGGTGTATAAGTTTCATGAGGATGAGCATGGTGAGGTTGTAGCTGAAAGTAAGAGGCCTGACTTAGAGCCATACATTGGATTGCATTATCCTTCTACTGATATTCCTCAGGCATCAAGGTTTTTGTTTAAGCAGAACCGCGTTAGGATGATTGTTGATTGCCATGCCTCTCCAGTTCGTGTAATTCAGGATGCAGGGCTTATGCAACATCTCTGCTTGGTGGGTTCAACTCTTCGTGCTCCCCATGGCTGCCATGCCCAGTATATGGCCAATATGGGCTCTATTGCTTCGTTAGCAATGGCAGTTGTAATCAATGGTAATGATGATGAAGCTATTGGTGGACGAAACTCAACAAGGCTTTGGGGTTTGGTTGTGTGCCACCATACTTCTGCTCGGTGCATTCCGTTCCCGCTCCGGTATGCGTGTGAGTTTCTAATGCAAGCCTTTGGGCTTCAACTGAATATGGAATTGCAGTTGGCCTCACAGATGTCTGAAAAACATGTTTTGAGGACTCAAACTCTCTTGTGTGACATGCTTCTTCGTGATTCCCCAGCTGGCATTGTTACTCAGAGTCCAAGCATCATGGACCTAGTAAAGTGTGATGGGGCAGCTCTTTACTATCAAGGGAAATATTACCCTCTGGGTGTGACGCCAACTGAGGCCCAAATAAAGGATATTGTGGAATGGTTGTTGGCTTTCCATGGAGATTCAACTGGTTTAAGTACAGATAGCTTGGCTGATGCTGGATATCCAGGAGCAGCCTTGCTGGGTGATGCAGTTTGTGGAATGGCTGTTGCTTACATCACAAAAAAGGATTTTCTATTTTGGTTCCGATCTCATACAGCAAAAGAGATCAAATGGGGTGGTGCAAAGCATCATCCGGAGGATAAGGATGATGGTCAAAGAATGCATCCACGTTCTTCATTCAAGGCATTCTTGGAAGTGGTAAAATCCCGTAGTTTACCATGGGAGAATGCAGAAATGGATGCAATTCACTCATTGCAGCTTATTCTACGAGACTCATTTAAGGATGATGTGGCAATCAATTCAAAGGCAGTTGTGCACCCTCATCTAGGGGATCTTGACTTGCAGGGGATTGATGAGCTCAGCTCGGTTGCAAGAGAAATGGTCAGGTTGATTGAAACTGCAACTGCACCTATCTTTGCTGTAGATGCTGATGGTCGTATCAATGGATGGAATGCTAAGATAGCAGAGTTGACTGGGCTTGCGGTTGAGGAGGCTATGGGGAAATCCTTAGTTCGTGATCTTGTGTACAAAGAGTCTGAAGAAACAGTTGACAAACTTGTTTCCCGGGCTTTAAAAGGTGAAGAAGATAAAAATGTAGAGTTAAAATTGAGGACATTTGGGCCAGAAGAAGATCAAAGGACGCCATTTTTTGTTGTTGTAAATGCTTGCTCTAGCAGGGACTACACTGATAATATAGTTGGCGTTTGTTTTGTTGGTCAAGATGTTACCTGCCAAAAAGTGTTCATGGACAAATTTGTAAGCATACAAGGTGATTATAAAGCAATTATTCATAGCCCAAATCCTCTTATCCCTCCAATATTTGCTTCAGACGACAATACATGTTGCTCGGAATGGAATACTGCCATGGAAAAGCTCACTGGATGGTCCAGAGAGGACATAATTGGAAAAATGCTGGTAGGAGAGGTTTTCGGAAGTTGTTGTCGACTGAAGGGTCCAGATGCATTGACCAAATTTATGATTGTCCTGCACAGTGCAATTGGAGGGCAGGACAATGAAAAATACCCCTTTTCTTTTTATGACAAAAAGGGGAAATATGTGCAAGCTCTCTTAACAGCAAATAAGAGGATGAATATGGAGGGTCAGATTGTTGGAGCTTTCTGCTTCTTACAGATAGCAAGTCCTGAATTGCAACAAACTCTTAGAATGCAGAGGCAACAGGAGAAGAACCGGTTTGCAAGGATGAAAGAGCTGGCTTACATTTGCCAGGAAGTGAAGAGTCCTTTGAGTGGTATACGCTTTACTAACTCACTTTTGGAGGCTACAGATTTGAGTGAAGATCAAAAGCAGTTCCTTGAGACCAGTGTTGCTTGTGAAAAACAAATGCTAAAGATTATTGAGGATATGGACTTGGAATGTATTGATGATGGTACGATGGAGCTTGAGAAGGGGGAGTTCTTATTGGGAAGTGTTATCAATGCTGTTGTTAGTCAAGTGATGATATTACTCAGAGAAAGAAACTTACAACTGATTCGTGATATACCAGAAGAAGTAAAGACCATGGCTGTCTATGGTGATCAAGTGAGGATTCAACAGGTCTTAGCCGATTTCTTGTTGAATATGGTCCGTTATGCTCCCTCTCCGGAAGGCTGGGTAGAAATACGTGTCTGTCCATTACTGAAGCAAAACTCAGAAGGAATTACTCTTGCACACACTGAATTCAGGATTGTATGCCCTGGGGAAGGTCTACCTCCTGAGTTAGTTCAGGACATGTTTCATAGTGGCAGATGGGTGACTCAAGAAGGATTAGGCTTGAGCATGTGCAGAAAGATTCTGAAGCTCATGAATGGTGAAACTTTTCCCATTAACATAAGATACCTGTGTAATTTCCCAGCCATTGTTTATAAGCCAAGCTCTGAGCTTACATGTCGTCGAGGCCATGTGATATAA 3405 43.26 MVSSNRATHSHQQQAQSSNTNTSNLRSHRTDSISKAIAQYTVDARLHAVFEQSGESGKSFDYSQSIRTSTQSVPEQQITAYLSKIQRGGHIQPFGCMIAIEEASFRVIAYSENARELLGLTPQSVPSLEKPEILTIGTDVRNLFTSNSAILLEKAFGAREITLLNPVWIHSKNSGKPFYAILHRIDVGIVIDLEPARTEDPALSIAGAVQSQKLAVRAISQLQALPGGDIKLLCDTVVESVRELTGYDRVMVYKFHEDEHGEVVAESKRPDLEPYIGLHYPSTDIPQASRFLFKQNRVRMIVDCHASPVRVIQDAGLMQHLCLVGSTLRAPHGCHAQYMANMGSIASLAMAVVINGNDDEAIGGRNSTRLWGLVVCHHTSARCIPFPLRYACEFLMQAFGLQLNMELQLASQMSEKHVLRTQTLLCDMLLRDSPAGIVTQSPSIMDLVKCDGAALYYQGKYYPLGVTPTEAQIKDIVEWLLAFHGDSTGLSTDSLADAGYPGAALLGDAVCGMAVAYITKKDFLFWFRSHTAKEIKWGGAKHHPEDKDDGQRMHPRSSFKAFLEVVKSRSLPWENAEMDAIHSLQLILRDSFKDDVAINSKAVVHPHLGDLDLQGIDELSSVAREMVRLIETATAPIFAVDADGRINGWNAKIAELTGLAVEEAMGKSLVRDLVYKESEETVDKLVSRALKGEEDKNVELKLRTFGPEEDQRTPFFVVVNACSSRDYTDNIVGVCFVGQDVTCQKVFMDKFVSIQGDYKAIIHSPNPLIPPIFASDDNTCCSEWNTAMEKLTGWSREDIIGKMLVGEVFGSCCRLKGPDALTKFMIVLHSAIGGQDNEKYPFSFYDKKGKYVQALLTANKRMNMEGQIVGAFCFLQIASPELQQTLRMQRQQEKNRFARMKELAYICQEVKSPLSGIRFTNSLLEATDLSEDQKQFLETSVACEKQMLKIIEDMDLECIDDGTMELEKGEFLLGSVINAVVSQVMILLRERNLQLIRDIPEEVKTMAVYGDQVRIQQVLADFLLNMVRYAPSPEGWVEIRVCPLLKQNSEGITLAHTEFRIVCPGEGLPPELVQDMFHSGRWVTQEGLGLSMCRKILKLMNGETFPINIRYLCNFPAIVYKPSSELTCRRGHVI 1134
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 5236998 5242817 + MELO3C006717.2.1 Cme06g00790 329939

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cme06g00790 1134 SMART HisKA_10 898 962 IPR003661 GO:0000155|GO:0007165
Cme06g00790 1134 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 229 397 IPR016132 -
Cme06g00790 1134 PANTHER TWO-COMPONENT HISTIDINE KINASE 7 1107 - -
Cme06g00790 1134 SMART gaf_1 229 417 IPR003018 GO:0005515
Cme06g00790 1134 SUPERFAMILY Homodimeric domain of signal transducing histidine kinase 886 954 IPR036097 GO:0000155|GO:0007165
Cme06g00790 1134 PANTHER PHYTOCHROME 7 1107 - -
Cme06g00790 1134 SMART pas_2 756 826 IPR000014 -
Cme06g00790 1134 SMART pas_2 624 691 IPR000014 -
Cme06g00790 1134 Gene3D - 961 1107 IPR036890 -
Cme06g00790 1134 CDD PAS 768 876 IPR000014 -
Cme06g00790 1134 Pfam His Kinase A (phospho-acceptor) domain 902 962 IPR003661 GO:0000155|GO:0007165
Cme06g00790 1134 SUPERFAMILY PYP-like sensor domain (PAS domain) 627 737 IPR035965 -
Cme06g00790 1134 ProSiteProfiles PAS repeat profile. 757 809 IPR000014 -
Cme06g00790 1134 Pfam GAF domain 229 407 IPR003018 GO:0005515
Cme06g00790 1134 Gene3D PAS domain 84 332 - -
Cme06g00790 1134 Pfam PAS fold 625 741 IPR013767 GO:0006355
Cme06g00790 1134 Pfam PAS fold 757 876 IPR013767 GO:0006355
Cme06g00790 1134 Gene3D - 879 960 - -
Cme06g00790 1134 TIGRFAM sensory_box: PAS domain S-box protein 629 743 IPR000014 -
Cme06g00790 1134 Gene3D - 210 568 IPR029016 -
Cme06g00790 1134 ProSiteProfiles Histidine kinase domain profile. 905 1103 IPR005467 -
Cme06g00790 1134 ProSitePatterns Phytochrome chromophore attachment site signature. 329 338 IPR013516 -
Cme06g00790 1134 SUPERFAMILY PYP-like sensor domain (PAS domain) 85 199 IPR035965 -
Cme06g00790 1134 SUPERFAMILY GAF domain-like 209 404 - -
Cme06g00790 1134 PRINTS Phytochrome signature 244 263 IPR001294 GO:0006355|GO:0009584
Cme06g00790 1134 PRINTS Phytochrome signature 437 457 IPR001294 GO:0006355|GO:0009584
Cme06g00790 1134 PRINTS Phytochrome signature 555 573 IPR001294 GO:0006355|GO:0009584
Cme06g00790 1134 PRINTS Phytochrome signature 625 641 IPR001294 GO:0006355|GO:0009584
Cme06g00790 1134 PRINTS Phytochrome signature 329 350 IPR001294 GO:0006355|GO:0009584
Cme06g00790 1134 PRINTS Phytochrome signature 739 759 IPR001294 GO:0006355|GO:0009584
Cme06g00790 1134 PRINTS Phytochrome signature 522 541 IPR001294 GO:0006355|GO:0009584
Cme06g00790 1134 PRINTS Phytochrome signature 719 736 IPR001294 GO:0006355|GO:0009584
Cme06g00790 1134 PRINTS Phytochrome signature 644 659 IPR001294 GO:0006355|GO:0009584
Cme06g00790 1134 PRINTS Phytochrome signature 144 166 IPR001294 GO:0006355|GO:0009584
Cme06g00790 1134 ProSiteProfiles PAS repeat profile. 622 693 IPR000014 -
Cme06g00790 1134 CDD PAS 633 741 IPR000014 -
Cme06g00790 1134 Gene3D PAS domain 770 878 - -
Cme06g00790 1134 Gene3D PAS domain 620 745 - -
Cme06g00790 1134 SMART HKATPase_4 1010 1125 IPR003594 -
Cme06g00790 1134 Gene3D - 412 585 IPR043150 -
Cme06g00790 1134 SUPERFAMILY PYP-like sensor domain (PAS domain) 771 875 IPR035965 -
Cme06g00790 1134 CDD HisKA 891 954 IPR003661 GO:0000155|GO:0007165
Cme06g00790 1134 PIRSF Phytochrome_conventional 12 1120 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cme06g00790 1134 Pfam Phytochrome region 420 593 IPR013515 GO:0006355|GO:0009584
Cme06g00790 1134 SUPERFAMILY GAF domain-like 415 592 - -
Cme06g00790 1134 Pfam PAS fold 80 196 IPR013654 GO:0006355
Cme06g00790 1134 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1010 1103 IPR003594 -
Cme06g00790 1134 MobiDBLite consensus disorder prediction 1 29 - -
Cme06g00790 1134 CDD HATPase_Phy-like 1009 1112 IPR044767 -
Cme06g00790 1134 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 973 1103 IPR036890 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cme06g00790 K12121 PHYB; phytochrome B - csv:101212197 2184.84
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cme03g01314 Cme-Chr3:22648039 Cme06g00790 Cme-Chr6:5236998 0 dispersed
Cme03g01317 Cme-Chr3:22681518 Cme06g00790 Cme-Chr6:5236998 0 dispersed
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
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
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
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
Cme06g00790 Cme_Chr06 FPKM 7.42616 5.838817 4.704403 8.633282 8.21381 5.628036 6.468773 0.0 5.394879 6.193834