Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cme03g01317 ATGTCATCAACTAGTAGACCAAGCCAAGCTTCCAGGAACACAGGAGGAGGATCTTCTTCTTTCTCACAATCAAGACACAGCTCCAGAATCCTCACTCAAACCTCCATAGATGCAAAGCTTCAATCCCACTTTGAGCAATCCGGTTCTTCCTTCGACTACTCCACTTCAATCCATCTCACCAACAACTCAACTCCCGCACCGCGGCCTGCCGCCACCACCACCGCATACCTTCACCAAATCCAAAAGTCCAACCTCATCCAACCCTTTGGCTGCCTCTTAGCCCTCCACCCCACCACCCTCAAACTCATTGCTTTCAGCCAAAATGCTCCCGAAATGCTCACCACCGTCGCCCACACCGTCCCCGACGGTGACAACCACCCCCTCCTCGCCATCGGCACCGACCTCCGAGCCATCTTCACCGCCCCCACAGCCACCGCCCTCCTCAAGGCCCTTGCCTTCCCCGATGTCACCCTCCTCAACCCTATTCTCGTCCACTCCAAGTCCTCAGGGAAGCCCTTTTACGCCGTTCTCCATCGCGTCACCGGTAGCCTTATCATCGACTTTGAACCTCTCAAACCCGACCAAGTCCCCGTCACCGCTGCAGGAGCTCTCCAATCTTATAAGCTCGCAGCCAAAGCCATCACTCGTCTTCAGGCTCTCCCCAGTGGGAGCCTGGTTAGACTGTGTGACACTATGGTTCAAGAAGTGTTTGAGTTGACAGGTTACGACAGAGTGATGGCTTATAAGTTTCACGATGATGATCATGGCGAGGTTTTTTGCGAGGTTACGAAGCCTGGTCTCGAACCTTATCTTGGTTTGCATTATCCAGCCACTGACATTCCTCAGGCTGCAAGATTTTTGTTCATGAAGAACAAGGTTAGAATGATTGTGGATTGTAGAGCCAAACATGTGAAGGTTATTCAAGATCACAATCTTGATTTTGATTTGACTTTGTGTGGCTCAACTTTAAGAGCTCCTCATTGTTGCCATTTGCAATATATGGAGAATATGGACTCTATTGCCTCATTGGTTATGGCCATTGTGGTAAATGAAGAAGAAGATGAAGAGATCAATTTTGATCATAACAACAACAATGATGCTTCTGTGCAAAAACTTAAGAGGAAAAGATTGTGGGGTTTGGTAGTTTGTCACAACACAACTCCTAGATTTGTCCCCTTTCCTCTTAGATATGCTTGTGAATTTCTAGCTCAAGTTTTTGCCATTCATGTCAACAAGGAATTGGAGTTAGAGAATCAAATTTTGGAGAAAAATATCTTGAGAACTCAAACACTTTTATGTGACATGTTAATGCGTGATGCTCCTTTAGGGATTGTGTCAAGAACTCCTAATATAATGGATCTTGTCAAATCTGATGGAGCCGCATTATTGTACAACAACAAGGTATGGAGATTAGGGATAACCCCTACTGATTTTCATCTTCAAGATATTGCTTCGTGGATTTTGGAGTATCATATGGATTCCACTGGTTTGAGTACTGATAGCTTGTACGATGCCGGGTACCCCGGCGCGCTTGCTCTTGGCGACGTAGTGTGTGGGATGGCTGCTGTGAGGATATCTTCCAACGACATGATTTTCTGGTTTCGATCGCACACTGCATCGGAGATTCGGTGGGGTGGGGCGAAGCATGAGCCGGGTGAGAAGGATGATGGAAGGAAAATGCATCCAAGATCATCTTTTAAGGCTTTTCTTGAAGTGGTTAAGACAAGGAGTTTGCCGTGGAAGGACTTTGAAATGGATGCAATTCATTCTTTGCAACTTATACTAAGAAATACTTTTAAAGATAGAGATGATCACATGAGTGAGATTCATAGAAAATCAATACAAACAACACTTAGTGATCTCAAGATTATAGATGGGAGGCAAGAATTGGAATCAGTAACAAGTGAAATGGTTAGGTTGATTGAAACAGCCACAGTTCCAATTTTGGCTGTTGATGTTGATGGGCTTGTGAATGGTTGGAACTCAAAAATTGCTGAATTGACTGGACTTTCGGTTGACAAAGCCATCGGCAAGAATTTGCTCACATTAGTGGAAGATTCTTCAGTTGAAATTGTCAAGAAGATGTTGGTCTTGGCATTACAAGGTCAAGAGGAAAAAAACGTTCAATTCGAGATAAAAACACACAACAAGGACATCAATTCAGGCTCGATAAGCCTAATAGTAAATGCTTGTGCCAGCAAAGACTTAAGCGAAAATGTGGTGGGAGTATGCTTTGTAGCACAAGACATAACATGTCAAAAGATAGTAATGGACAAATTCACAAAACTACAAGGTGATTACAAAGCCATAGTACAAAACCCTAACCCACTAATCCCCCCAATATTTGGTTTAGATGAATTTGGTTGGTGCACAGAATGGAACTTAGCAATGACGAAACTAAGTGGATGGTCTCGTGAATCAGTTGTCAACAAAATGCTTTTAGGAGAAGTTTTTGGAACACAATTAAACAACTCATCATCATGTTGTTGCCAACTCAAGAATCAAGAAGCATTTGTGAATCTTGGGATTGTGTTGAACAATGCAATGAGTGGGCAAGATCCTGAAAAGAATATTTCGTTTGGATTTTATGGAAGAAATGGGATGTTTGTGGAATGTCTATTATGTGTTAATAAGATATTGGATAGAGATGGTGGAGTTATTGGGGTTTTTTGTTTCTTGCAACTTGCAAGTCAAGAATTGCAACAAGCTTTGAATATTCAAAAATTGTGTGAGAGAACTGCTTTGAATAGGTTGAAGGCATTGGGATATATGAAGAGGCAGATTCAAAATCCACTTTCCGGGATTATTTTCTCAAGGAAAATGTTGCAACAAACTCAGTTGGGAGTGGAACAGAAGCAACTTTTGATTAATAGTGTTAATTGTCAAAGGCAAATCTCCAAGGTTCTTGATGAGTCTCATGATCTTGATCATATTATTCAAGGTTTGGTTGAATTAGAAATGGTTGAGTTTTCATTATATGAAGTATTGGTGGTAGCAATAAGTCAAGTGATGATGAAGAGCAAAGGGAAAGGCATTCAAATAGAAAATGAAGTTGGAGAAGAGATAATGTGTGAGACATTATATGGAGACAATTTGAGACTTCAACAAATAATGGCTGATTTCTTGTTGATATCAGTTCATTATGCACCAACAGGTGGCCAACTTATGCTTTCAACAACTTTTACTAATAACGATCATCATTTTGGGAACTCACTACATCTTCTTCATCTTGAATTCAGGATAACATATGTTGGAGGAGGCATACCAGAATCATTGTTGAATGAGATGTTTGGAAATGATATCATCGATCATGAGGATTCATCTGACGAAGGTTTTAGCCTTTTTATAAGTAGAAAACTTGTGAAGATGATGAATGGAGATGTGAGATATGTGAGAGAAGCTGCCAAATCAACCTTCATTATAACTCTTCAACTTGCTGCTGCTGCTGCTGCTCATAAGTAA 3462 41.68 MSSTSRPSQASRNTGGGSSSFSQSRHSSRILTQTSIDAKLQSHFEQSGSSFDYSTSIHLTNNSTPAPRPAATTTAYLHQIQKSNLIQPFGCLLALHPTTLKLIAFSQNAPEMLTTVAHTVPDGDNHPLLAIGTDLRAIFTAPTATALLKALAFPDVTLLNPILVHSKSSGKPFYAVLHRVTGSLIIDFEPLKPDQVPVTAAGALQSYKLAAKAITRLQALPSGSLVRLCDTMVQEVFELTGYDRVMAYKFHDDDHGEVFCEVTKPGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRAKHVKVIQDHNLDFDLTLCGSTLRAPHCCHLQYMENMDSIASLVMAIVVNEEEDEEINFDHNNNNDASVQKLKRKRLWGLVVCHNTTPRFVPFPLRYACEFLAQVFAIHVNKELELENQILEKNILRTQTLLCDMLMRDAPLGIVSRTPNIMDLVKSDGAALLYNNKVWRLGITPTDFHLQDIASWILEYHMDSTGLSTDSLYDAGYPGALALGDVVCGMAAVRISSNDMIFWFRSHTASEIRWGGAKHEPGEKDDGRKMHPRSSFKAFLEVVKTRSLPWKDFEMDAIHSLQLILRNTFKDRDDHMSEIHRKSIQTTLSDLKIIDGRQELESVTSEMVRLIETATVPILAVDVDGLVNGWNSKIAELTGLSVDKAIGKNLLTLVEDSSVEIVKKMLVLALQGQEEKNVQFEIKTHNKDINSGSISLIVNACASKDLSENVVGVCFVAQDITCQKIVMDKFTKLQGDYKAIVQNPNPLIPPIFGLDEFGWCTEWNLAMTKLSGWSRESVVNKMLLGEVFGTQLNNSSSCCCQLKNQEAFVNLGIVLNNAMSGQDPEKNISFGFYGRNGMFVECLLCVNKILDRDGGVIGVFCFLQLASQELQQALNIQKLCERTALNRLKALGYMKRQIQNPLSGIIFSRKMLQQTQLGVEQKQLLINSVNCQRQISKVLDESHDLDHIIQGLVELEMVEFSLYEVLVVAISQVMMKSKGKGIQIENEVGEEIMCETLYGDNLRLQQIMADFLLISVHYAPTGGQLMLSTTFTNNDHHFGNSLHLLHLEFRITYVGGGIPESLLNEMFGNDIIDHEDSSDEGFSLFISRKLVKMMNGDVRYVREAAKSTFIITLQLAAAAAAHK 1153
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
3 22681518 22685874 + MELO3C026506.2.1 Cme03g01317 323328

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cme03g01317 1153 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 224 404 IPR016132 -
Cme03g01317 1153 PANTHER PHYTOCHROME A 6 1149 - -
Cme03g01317 1153 PANTHER TWO-COMPONENT HISTIDINE KINASE 6 1149 - -
Cme03g01317 1153 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1029 1145 IPR003594 -
Cme03g01317 1153 MobiDBLite consensus disorder prediction 1 28 - -
Cme03g01317 1153 Pfam PAS fold 766 894 IPR013767 GO:0006355
Cme03g01317 1153 Pfam PAS fold 636 750 IPR013767 GO:0006355
Cme03g01317 1153 ProSitePatterns Phytochrome chromophore attachment site signature. 324 333 IPR013516 -
Cme03g01317 1153 SUPERFAMILY PYP-like sensor domain (PAS domain) 80 194 IPR035965 -
Cme03g01317 1153 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 974 1143 IPR036890 -
Cme03g01317 1153 Gene3D PAS domain 79 327 - -
Cme03g01317 1153 ProSiteProfiles PAS repeat profile. 766 818 IPR000014 -
Cme03g01317 1153 Gene3D - 205 575 IPR029016 -
Cme03g01317 1153 CDD PAS 644 750 IPR000014 -
Cme03g01317 1153 CDD PAS 777 894 IPR000014 -
Cme03g01317 1153 PIRSF Phytochrome_conventional 6 1153 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cme03g01317 1153 Gene3D - 419 592 IPR043150 -
Cme03g01317 1153 SUPERFAMILY PYP-like sensor domain (PAS domain) 639 746 IPR035965 -
Cme03g01317 1153 Coils Coil 411 431 - -
Cme03g01317 1153 Pfam GAF domain 225 414 IPR003018 GO:0005515
Cme03g01317 1153 SMART gaf_1 224 424 IPR003018 GO:0005515
Cme03g01317 1153 SUPERFAMILY GAF domain-like 422 601 - -
Cme03g01317 1153 SMART HKATPase_4 1029 1147 IPR003594 -
Cme03g01317 1153 SMART pas_2 765 837 IPR000014 -
Cme03g01317 1153 SMART pas_2 635 701 IPR000014 -
Cme03g01317 1153 ProSiteProfiles Histidine kinase domain profile. 923 1147 IPR005467 -
Cme03g01317 1153 Gene3D - 960 1141 IPR036890 -
Cme03g01317 1153 Gene3D PAS domain 629 764 - -
Cme03g01317 1153 SUPERFAMILY PYP-like sensor domain (PAS domain) 780 891 IPR035965 -
Cme03g01317 1153 ProSiteProfiles PAS repeat profile. 633 703 IPR000014 -
Cme03g01317 1153 SUPERFAMILY GAF domain-like 204 411 - -
Cme03g01317 1153 PRINTS Phytochrome signature 139 161 IPR001294 GO:0006355|GO:0009584
Cme03g01317 1153 PRINTS Phytochrome signature 239 258 IPR001294 GO:0006355|GO:0009584
Cme03g01317 1153 PRINTS Phytochrome signature 324 345 IPR001294 GO:0006355|GO:0009584
Cme03g01317 1153 PRINTS Phytochrome signature 444 464 IPR001294 GO:0006355|GO:0009584
Cme03g01317 1153 PRINTS Phytochrome signature 529 548 IPR001294 GO:0006355|GO:0009584
Cme03g01317 1153 PRINTS Phytochrome signature 562 580 IPR001294 GO:0006355|GO:0009584
Cme03g01317 1153 PRINTS Phytochrome signature 636 652 IPR001294 GO:0006355|GO:0009584
Cme03g01317 1153 PRINTS Phytochrome signature 655 670 IPR001294 GO:0006355|GO:0009584
Cme03g01317 1153 PRINTS Phytochrome signature 728 745 IPR001294 GO:0006355|GO:0009584
Cme03g01317 1153 PRINTS Phytochrome signature 748 768 IPR001294 GO:0006355|GO:0009584
Cme03g01317 1153 TIGRFAM sensory_box: PAS domain S-box protein 640 753 IPR000014 -
Cme03g01317 1153 Pfam Phytochrome region 427 602 IPR013515 GO:0006355|GO:0009584
Cme03g01317 1153 Pfam PAS fold 75 190 IPR013654 GO:0006355
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cme03g01317 K12120 PHYA; phytochrome A - csv:101219585 2147.09
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cme03g01317 Cme-Chr3:22681518 Cme06g00790 Cme-Chr6:5236998 0 dispersed
Cme03g01314 Cme-Chr3:22648039 Cme03g01317 Cme-Chr3:22681518 0 proximal
       

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
OG0002826 1 3 1 1 1 2 2 2 3 2 2 2 2 2 2 2 2 2 2 2 2 1 2 2 2 2 1 3 2 1 56
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cme03g01317 Cme_Chr03 FPKM 0.576917 1.232147 0.28909 0.0 3.51047 5.629688 3.420834 0.0 0.0 0.0