Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cme01g00552 ATGTCTTCAACGTCAGCAAATAAGACTGTGTGTTCTAAGACCAGCTTTGACCGATCGAAACATGGGGCTCATGTGGTTGCACAGACCCCAATTGATGCAAAGCTTCATGTAGACTTTGAAGGTTCCGAAAGGTTTTTTGATTACTCTGCATCCGTTGATTTCAATGCCGCTTGTTCCACTAGCAATATTCATGCTTCCACTGTACAGTCATACCTTCAAAACATTCAGAGAGGAAGTCTAGTTCAACCATTTGGTTGTATGATTGCTGTGGACGGGGAAAACTTGTCTGTTCTTGCATATAGTGAAAATGCCCCCGAAATGTTGGACTTGGCCCCACACGCTGTGCCTAACATCGAGCAGCAAGAAGCTTTAACTTTTGGAACAGATGTACGGACTCTTTTTCGTTCACCCGGAGCTGCAGCTTTGCAGAAAGCAGCTGACTTTAAGGAAGTTAATCTTCTCAATCCTATTCTAGTCCATTGTAGAACTTCTGGTAAACCATTTTATGCAATTTTGCATCGAGTTGACGTGGGATTAATTATAGATCTGGAACCGGTGAACCCAGCTGATGTGCCAGTGACTGCAGCTGGGGCATTGAAATCTTATAAGCTAGCAGCTAAAGCCATCTCAAAATTGCAGTCCTTGCCAAGTGGGAATATATCTCTTTTGTGTGAGGTATTGGTTAAGGAGGTTAGCGATTTGACAGGTTATGATCGAGTAATGGTGTATAAATTCCATGATGATGAACATGGAGAAGTTGTAGCTGAGTGCTGTCTATCAGACTTAGAACCATATTTTGGCTTGCACTACCCAGCTACTGATATACCTCAAGCTTCAAGGTTCCTGTTTCTGAAGAATAAAGTTAGAATGATATGTGATTGTTTGGCGCCTCCAGTTAAAGTGCTTCAAGACAGGAGATTAGCTCAGCCATTAAGTTTATGTGGGTCTGCATTGAGAGCTCCTCATGGTTGTCATGCTCGATATATGATGAATATGGGTTCTATTGCATCTCTTGTGATGTCTATTACGATCAATGAGAATGATAGTGAATCGGAAAATGATCAAGAAAAGGATAGAAAGTTGTGGGGTTTAGTAGTTTGCCATCACACTAGCCCTAGGTTTGTTCCATTTCCTTTGCGATATGCTTGTGAATTCTTGATTCAAGTATTTGGTATACAGATTAACAAAGAGGTGGAGTTGCAAGCTCAGTTGAAGGAAAAACACATCTTGCGAATTCAAACAGTTCTTTGTGATATGCTGCTAAGAGATGCTCCGGTAGGAATTGTTACTCAATCTCCCAATATTATGGATCTTGTTAAGTGTGATGGTGCTGCCTTATATTTCAGAAAGAAATTTTGGTTACTTGGAGTCACCCCCACAGAGGCGCAAATTAGAAATATAGCTGACTGGCTTCTCAAAGACCATAATGGAAGCACAGGTTTAAGTACTGATAGCCTTATTGAAGCTGGTTTCTATGGTGCTTCTGCGCTTGGTGATGAGGTTTGTGGAATGGCTGCTGTTAGGATTACGTCTAAGGACTTCCTTTTCTGGTTTCGTTCACATATGGCTAAAGAAATCAGGTGGGGTGGTGCAAAACATGATCCTAGTGATGAGGATGATGGAAGAAAGATGCATCCAAGATCATCATTCAAGGCTTTCCTGGAAGTGGTGAAGCGGCGTAGTCAACCTTGGGAAGATGTGGAAATGGATGCCATTCATTCACTGCAATTAATATTACGGGGTTCTTTACAGGATGAAATTGAAGAAGAATGCAAGGTGATTACAACTGTCCCACCAGTTGATGAGAAGTCACAACAATTGGATGAATTGCGCGTCATTACAAATGAGATGGTTCGCCTAATTGAAACAGCTGCAGTGCCCATCTTGGCTGTAGATGTCTTTGGCAAGATCAATGGTTGGAACTCCAAAGCCACTGAGCTTACAGGATTGGCTATCCAGGAAGCCATGGGAATGCCCTTAGTTGATTGTCTGGTTAATGATTCTGTTAAGGTGGTAAGGAAAATGCTGTCCATGGCCATTCAAGGTATTGAAGAGAAGAACGTTGAAATCAAACTCAAAACATTTGGAACTGCGGTACAAAATGGTCCAGTGATCTTAGACGTTAACTCTTGTTGTAGCCGAGACTTAAACAATAATGTTGTAGGAATTTCTTTTATAGGGCAGGATGTTACGAAGCAAAAACTGGTAATGAACCAATACACCCAAATCCAAGGTGATTACACGGGGATTATGCGAAACCCATCTGCACTTATTCCTCCAATTTTTATGGCCGATGGCGAGGGCCGGTGCTTGGAATGGAATGATGCAATGGAAAAGTTATCTGGTTTTAGAAGGGTAGAGATGACAAATAGAATGCTTCTTGGGGAGGTTTTCACGCTTGAAAACTTTGGATGCCGTGTGAAAGATCACACATTGACCAAGCTTAGGATCCTACTGCATAGAGTAATTTCAGGCCAGGATACAGAGAAATTTTTGTTTCGCTTCTGTGATCGTGAAGGAAACTACATTGAATCATTGCTTACCGCAAGCAAAAGGACTGATGCAGAGGGTACTATCACTGGGGTTTTCTTCTTCTTGCACGTGGCTAGTCCAGAACTTCAATATGCTTTGGAGATGCAGCGAATTTCGGAACAAGCTACAGCTGAAAATCTCCATAAATTAGCATATCTGCGTCAAGAAATTCGAAAACCCCTTGATGGGATTACATTTATGCAGAATCTAATAAGTTCATCTGACTTAAGCATAGAGCAAAAACATTACATGGAAACGAACTGTATTGAATTCAACCTTGGAGATGTCCTTGACGTTGTAACAAATCAAGCCATGATTTTGAGCCAAGAGCGTGAGGTGAAGATCATTTGTGAATCACCCGCCGACGTGTCATCTTTGCACTTATACGGAGATAACTTGAGGCTACAGCAAGTGCTCTCTGAGTTCTTGACGAACACACTTCTCTTCACTTGCAAAGAATTGTCTGTCATCTTTAAAGCAACTCCAAGGAAGGAGCGCATTGGGAAGGGAATCCACATTGTTCATCTTGAATTGAGGATCACCCATCCCACTCCAGGAATTCCTGCACACTTAATCCAAGAGATGTTTGACGACAACAACGATAGCTCAAAGGAAGGTCTTGGCTTATACATAAGCCAGAAGCTTGTGAAGATTATGAATGGCACTGTACAGTATCTTCGAGAGGCGGAAACCTCGTCATTCATCATCCTCATAGAATTCCCCTTGGTAGAGCATGTTGCTGGATGA 3279 41.96 MSSTSANKTVCSKTSFDRSKHGAHVVAQTPIDAKLHVDFEGSERFFDYSASVDFNAACSTSNIHASTVQSYLQNIQRGSLVQPFGCMIAVDGENLSVLAYSENAPEMLDLAPHAVPNIEQQEALTFGTDVRTLFRSPGAAALQKAADFKEVNLLNPILVHCRTSGKPFYAILHRVDVGLIIDLEPVNPADVPVTAAGALKSYKLAAKAISKLQSLPSGNISLLCEVLVKEVSDLTGYDRVMVYKFHDDEHGEVVAECCLSDLEPYFGLHYPATDIPQASRFLFLKNKVRMICDCLAPPVKVLQDRRLAQPLSLCGSALRAPHGCHARYMMNMGSIASLVMSITINENDSESENDQEKDRKLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGIQINKEVELQAQLKEKHILRIQTVLCDMLLRDAPVGIVTQSPNIMDLVKCDGAALYFRKKFWLLGVTPTEAQIRNIADWLLKDHNGSTGLSTDSLIEAGFYGASALGDEVCGMAAVRITSKDFLFWFRSHMAKEIRWGGAKHDPSDEDDGRKMHPRSSFKAFLEVVKRRSQPWEDVEMDAIHSLQLILRGSLQDEIEEECKVITTVPPVDEKSQQLDELRVITNEMVRLIETAAVPILAVDVFGKINGWNSKATELTGLAIQEAMGMPLVDCLVNDSVKVVRKMLSMAIQGIEEKNVEIKLKTFGTAVQNGPVILDVNSCCSRDLNNNVVGISFIGQDVTKQKLVMNQYTQIQGDYTGIMRNPSALIPPIFMADGEGRCLEWNDAMEKLSGFRRVEMTNRMLLGEVFTLENFGCRVKDHTLTKLRILLHRVISGQDTEKFLFRFCDREGNYIESLLTASKRTDAEGTITGVFFFLHVASPELQYALEMQRISEQATAENLHKLAYLRQEIRKPLDGITFMQNLISSSDLSIEQKHYMETNCIEFNLGDVLDVVTNQAMILSQEREVKIICESPADVSSLHLYGDNLRLQQVLSEFLTNTLLFTCKELSVIFKATPRKERIGKGIHIVHLELRITHPTPGIPAHLIQEMFDDNNDSSKEGLGLYISQKLVKIMNGTVQYLREAETSSFIILIEFPLVEHVAG 1092
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 4104281 4111289 - MELO3C024196.2.1 Cme01g00552 317528

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cme01g00552 1092 Gene3D - 403 576 IPR043150 -
Cme01g00552 1092 SMART pas_2 745 815 IPR000014 -
Cme01g00552 1092 SMART pas_2 615 681 IPR000014 -
Cme01g00552 1092 Gene3D PAS domain 74 322 - -
Cme01g00552 1092 PIRSF Phytochrome_conventional 925 1091 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cme01g00552 1092 PIRSF Phytochrome_conventional 2 933 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cme01g00552 1092 Gene3D - 909 1080 IPR036890 -
Cme01g00552 1092 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 974 1080 IPR003594 -
Cme01g00552 1092 Gene3D PAS domain 601 744 - -
Cme01g00552 1092 Pfam Phytochrome region 411 585 IPR013515 GO:0006355|GO:0009584
Cme01g00552 1092 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 219 388 IPR016132 -
Cme01g00552 1092 TIGRFAM sensory_box: PAS domain S-box protein 620 734 IPR000014 -
Cme01g00552 1092 TIGRFAM sensory_box: PAS domain S-box protein 760 866 IPR000014 -
Cme01g00552 1092 ProSiteProfiles PAS repeat profile. 613 683 IPR000014 -
Cme01g00552 1092 SUPERFAMILY PYP-like sensor domain (PAS domain) 75 188 IPR035965 -
Cme01g00552 1092 CDD PAS 757 867 IPR000014 -
Cme01g00552 1092 SUPERFAMILY PYP-like sensor domain (PAS domain) 760 864 IPR035965 -
Cme01g00552 1092 SMART gaf_1 219 408 IPR003018 GO:0005515
Cme01g00552 1092 ProSiteProfiles PAS repeat profile. 746 798 IPR000014 -
Cme01g00552 1092 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 935 1085 IPR036890 -
Cme01g00552 1092 Gene3D - 200 559 IPR029016 -
Cme01g00552 1092 ProSiteProfiles Histidine kinase domain profile. 896 1088 IPR005467 -
Cme01g00552 1092 Pfam PAS fold 616 730 IPR013767 GO:0006355
Cme01g00552 1092 Pfam PAS fold 756 867 IPR013767 GO:0006355
Cme01g00552 1092 PANTHER PHYTOCHROME C 1 932 - -
Cme01g00552 1092 PANTHER PHYTOCHROME C 937 1088 - -
Cme01g00552 1092 CDD HATPase_Phy-like 973 1084 IPR044767 -
Cme01g00552 1092 PANTHER TWO-COMPONENT HISTIDINE KINASE 1 932 - -
Cme01g00552 1092 PANTHER TWO-COMPONENT HISTIDINE KINASE 937 1088 - -
Cme01g00552 1092 SMART HKATPase_4 974 1088 IPR003594 -
Cme01g00552 1092 Gene3D PAS domain 759 870 - -
Cme01g00552 1092 SUPERFAMILY GAF domain-like 406 586 - -
Cme01g00552 1092 Pfam GAF domain 220 398 IPR003018 GO:0005515
Cme01g00552 1092 Pfam PAS fold 71 186 IPR013654 GO:0006355
Cme01g00552 1092 SUPERFAMILY GAF domain-like 199 395 - -
Cme01g00552 1092 PRINTS Phytochrome signature 134 156 IPR001294 GO:0006355|GO:0009584
Cme01g00552 1092 PRINTS Phytochrome signature 513 532 IPR001294 GO:0006355|GO:0009584
Cme01g00552 1092 PRINTS Phytochrome signature 616 632 IPR001294 GO:0006355|GO:0009584
Cme01g00552 1092 PRINTS Phytochrome signature 708 725 IPR001294 GO:0006355|GO:0009584
Cme01g00552 1092 PRINTS Phytochrome signature 319 340 IPR001294 GO:0006355|GO:0009584
Cme01g00552 1092 PRINTS Phytochrome signature 234 253 IPR001294 GO:0006355|GO:0009584
Cme01g00552 1092 PRINTS Phytochrome signature 546 564 IPR001294 GO:0006355|GO:0009584
Cme01g00552 1092 PRINTS Phytochrome signature 635 650 IPR001294 GO:0006355|GO:0009584
Cme01g00552 1092 PRINTS Phytochrome signature 428 448 IPR001294 GO:0006355|GO:0009584
Cme01g00552 1092 PRINTS Phytochrome signature 728 748 IPR001294 GO:0006355|GO:0009584
Cme01g00552 1092 SUPERFAMILY PYP-like sensor domain (PAS domain) 622 733 IPR035965 -
Cme01g00552 1092 CDD PAS 624 730 IPR000014 -
Cme01g00552 1092 ProSitePatterns Phytochrome chromophore attachment site signature. 319 328 IPR013516 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cme01g00552 - - - csv:101211915 2093.16
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cme01g00552 Cme-Chr1:4104281 Cme03g01314 Cme-Chr3:22648039 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
Vvi12g703 Blo02g00140 Blo15g00444 . . . . . . . Cmo19g00869 . . . . Sed05g2128 Cpe15g00685 . Bhi05g01475 Tan02g0490 Cmetu01g1663 Lac12g0396 . . . Cla02g00291 Cam02g0302 Cec02g0302 Cco02g0306 Clacu02g0294 Cmu02g0290 Cre02g0625 . . Cone8ag1368 Cone12ag1314 . Csa07g00253 . Cme01g00552 . . . . . . . . . . . . Cma19g00854 . Car19g00664 . . . . . . . . . . . . . . . . Lsi11g01345 . Chy01g00529 .
       

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
OG0005493 1 2 2 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 1 1 1 1 1 1 1 1 1 2 7 1 40
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cme01g00552 Cme_Chr01 FPKM 31.491171 33.758492 6.075299 6.048806 12.826414 10.757798 11.724382 7.891005 8.766632 8.566765