Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cme03g01314 TCTCTCTCCTCAATCCCATTTCTCACTCTATATTCCCCCCCACCATGCTTAATTCTTCCCTCTCTTTCCCTCTCTAATTCACCGGCACCGCCCTTCGCCCCACCGGAAATTCCTTTTGCTTCGGGTTGGAAAAACATGTCTTCCTCTAGACCTAGCCAGTCTTCTAGCAACTCTGGGCGGTCAAGACATAGCACCAGAATTATTGCTCAAACATCTGTTGATGCAAAACTCCATGCTGATTTTGAGGAATCTGGGAATTCATTCGACTACTCAAGTTCAGTGCGTGTCTCTAGTGACGTTAGTGGAGATCACCAACCTAGGTCAGACAAAGTTACAACAGCTTATCTCCACCACATACAGAAAGGGAAGCTTATCCAACCATTTGGTTGCTTATTGGCCTTAGATGAAAAAACATTCAAGGTTATTGCATATAGTGAAAATGCCCCTGAAATGTTGACCATGGTCAGTCATGCTGTCCCAAGCATGGGGGATTACCCTGTTCTTGGCATAGGGACAGATGTGAGGACTATTTTCACTGCACCTAGTGCTTCTGCACTGTTGAAGGCCTTGGGCTTTGGGGAAGTTACACTTCTTAATCCCATCCTAGTGCATTGCAAGACTTCTGGAAAACCCTTTTATGCAATTGTGCATCGTGTTACTGGAAGCTTAATCATTGACTTTGAGCCTGTGAAGCCTTATGAAGTTCCAGTAACAGCAGCTGGAGCCCTACAATCATATAAACTTGCCGCCAAAGCAATTACTAGATTGCAGTCCTTGCCTAGTGGGTGCATGGCTAGGCTTTGTGACACAATGGTTCAAGAAGTTTTTGAACTAACTGGTTATGATAGAGTCATGGCTTATAAATTCCATGATGATGATCATGGGGAAGTGATCTCTGAAGTCACAAAGCCTGGTCTTGAGCCATATCTTGGTTTGCATTATCCGGCCACTGACATTCCTCAAGCCGCACGCTTTTTGTTCATGAAAAATAAAGTCCGCATGATTGTTGATTGTCGTGCAAAACATTTAAAAGTCCTCCAAGATGAGAAATTACAGTTTGATCTAACTTTATGTGGTTCAACATTAAGGGCTCCACACAGTTGCCACTTACAGTATATGGAAAACATGAACTCTATAGCCTCTTTGGTTATGGCAGTTGTGGTTAATGAAGGGGATGAAGATGCCGAGGGCCCTGCTTTGCAGCAACAAAAGAGAAAGAGACTATGGGGGTTAGTAGTATGTCATAATACAAGTCCCAGATTTGTTCCTTTTCCTCTTAGGTATGCTTGTGAGTTTCTTGCTCAAGTATTTGCTATTCACGTGAACAAGGAATTGGAGTTGGAAAATCAAATTATAGAGAAAAATATTCTGCGTACACAGACACTCTTGTGCGACATGCTAATGCGTGATGCTCCTTTAGGTATTGTGTCAAGGAGTCCTAACATAATGGATCTTGTGAAATCTGATGGGGCTGCCTTGTTATATAAGAACAAAATTTGGCGATTGGGCATGACACCCAGTGACTTTCATTTGCGGGACATTGCCTCGTGGCTTTCAGAATATCATATGGATTCAACAGGGTTGAGTACTGACAGCTTGTATGATGCAGGATATCCTGGAGCTCTTGCTTTAGGTGATGAAGTATGTGGGATGGCTGCTGTGCGGATAACTACTAATGATATGATTTTTTGGTTTCGGTCTCACACTGCTTCAGAGATTCGGTGGGGTGGAGCAAAGCATGAACATGGTGAGAAGGACGACGGCAGAAAAATGCATCCAAGATCATCTTTCAAGGCTTTCCTTGAAGTAGTGAAAACAAGAAGTTTGCCTTGGAAGGACTACGAAATGGATGCAATCCACTCTTTACAACTGATCCTTAGAAATACTTTTAAAGATACAGATACAGATGAAATAAATCGAAAATCAATTCAAATGACGCTTGGTGACCTAAAAATTGAAGGGAGGCAAGAATTGGAATCAGTAACAAGTGAAATGGTCAGGTTAATTGAGACAGCTACTGTGCCGATTTTAGCAGTTGATGTAGATGGGTCAATTAATGGGTGGAATACAAAGATTGCTGAATTGACTGGACTCCCTGTGGATAAAGCTATTGGCAAGCATTTGCTTACGTTAGTGGAAGATACTTCTGTAGAAGTTGTCAAGAAAATGTTGTATTTGGCATTGCAAGGACAAGAAGAGCAAAACGTTCAATTTGAGATCAAGACGCATGGTTCTCATATTGAGGTTGGCTCGATCAGGCTTGTTGTAAATGCTTGTGCAAGTAGGGACTTGCGTGAAAATGTTGTGGGGGTGTGTTTTGTAGCACAAGATATCACTGGTCAGAAGATGGTTATGGACAAGTTCACTCGATTAGAAGGTGATTACAAAGCTATTGTACAAAATCCCAATCCATTAATCCCTCCAATATTTGGTTCAGATCAATTTGGATGGTGCTCAGAGTGGAATCCTGCAATGACAAAAGTAACTGGGTGGTCACGTGAAGAAGTAATTGATAAGATGCTTTTAGGAGAGGTTTTTGGCGCGCACAAGTCATGTTGTCGTTTAAAGAATCAAGAAGCTTTTGTTAATCTTGGGGTTGTTTTGAACAATGCCATGAGTGGTCAAGATCCTGAAAAGGTTTCTTTTGGCTTCTTTGCTCGGAACGGGATGTACGTGGAATGTCTTCTGTGTGTCAATAAGATCTTGGATAAGGATGGGGTCATTACTGGGGTTTTTTGCTTTCTGCAGCTTGCTAGTCATGAGTTGCAACAAGCACTAAATATCCAACGATTATGTGAGCAGACTGCTTTGAAGAGATTGAGAGCATTGGGATACATAAAAAGACACGTACAAAATCCTCTTTCTGGGATAATCTTTTCGAGAAGATTATTGGAACGTACCGAGTTGGGAATAGAACAAAGGGAAATTCTGCTTACTAGCTTACACTGTCAAAAGCAAATCTCCAAGGTTCTGGAAGAGTCTGACCTTGATAAAATTATCGACGGGTTCATTGATCTGGAAATGGTGGAGTTTACATTGCATGAAGTATTGAAGGTATCAATCAGTCAAGTAATGATAAAGAGCAAAGGAAAGGCTATCCAGATAGTTAATGAGACTGTAGAAGAGGCCATGTCCGAGACCTTATATGGTGATAGTTTGAGGCTTCAACAAGTCTTGGCAGATTTTCTATTGCTATCAGTTAGTTATGCGCCAGCAGGAGGCCAACTGACAATTTCAACCAACTTGACCAAGGATCAATTAGGAAAGTCGGTTCATCTCGTGCATTTGGAATTCAGGATAACGTATGCTGGAGGCGGTATACCCGAATCGTTGCTGAACGAGATGTTTGGTAGTGAGGAGGAGGCTTCTGAGGAGGGTTTTAGTCTACTCATCAGTAGAAAACTAGTGAAGCTAATGAATGGAGATGTAAGATACATGAGGGAAGCAGGTAAGTCAAGCTTCATCATAACTGTTGAGCTTGCTGCTGCACACAAGACAAGTATGTAG 3507 41.92 SLSSIPFLTLYSPPPCLILPSLSLSNSPAPPFAPPEIPFASGWKNMSSSRPSQSSSNSGRSRHSTRIIAQTSVDAKLHADFEESGNSFDYSSSVRVSSDVSGDHQPRSDKVTTAYLHHIQKGKLIQPFGCLLALDEKTFKVIAYSENAPEMLTMVSHAVPSMGDYPVLGIGTDVRTIFTAPSASALLKALGFGEVTLLNPILVHCKTSGKPFYAIVHRVTGSLIIDFEPVKPYEVPVTAAGALQSYKLAAKAITRLQSLPSGCMARLCDTMVQEVFELTGYDRVMAYKFHDDDHGEVISEVTKPGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRAKHLKVLQDEKLQFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNEGDEDAEGPALQQQKRKRLWGLVVCHNTSPRFVPFPLRYACEFLAQVFAIHVNKELELENQIIEKNILRTQTLLCDMLMRDAPLGIVSRSPNIMDLVKSDGAALLYKNKIWRLGMTPSDFHLRDIASWLSEYHMDSTGLSTDSLYDAGYPGALALGDEVCGMAAVRITTNDMIFWFRSHTASEIRWGGAKHEHGEKDDGRKMHPRSSFKAFLEVVKTRSLPWKDYEMDAIHSLQLILRNTFKDTDTDEINRKSIQMTLGDLKIEGRQELESVTSEMVRLIETATVPILAVDVDGSINGWNTKIAELTGLPVDKAIGKHLLTLVEDTSVEVVKKMLYLALQGQEEQNVQFEIKTHGSHIEVGSIRLVVNACASRDLRENVVGVCFVAQDITGQKMVMDKFTRLEGDYKAIVQNPNPLIPPIFGSDQFGWCSEWNPAMTKVTGWSREEVIDKMLLGEVFGAHKSCCRLKNQEAFVNLGVVLNNAMSGQDPEKVSFGFFARNGMYVECLLCVNKILDKDGVITGVFCFLQLASHELQQALNIQRLCEQTALKRLRALGYIKRHVQNPLSGIIFSRRLLERTELGIEQREILLTSLHCQKQISKVLEESDLDKIIDGFIDLEMVEFTLHEVLKVSISQVMIKSKGKAIQIVNETVEEAMSETLYGDSLRLQQVLADFLLLSVSYAPAGGQLTISTNLTKDQLGKSVHLVHLEFRITYAGGGIPESLLNEMFGSEEEASEEGFSLLISRKLVKLMNGDVRYMREAGKSSFIITVELAAAHKTSM 1168
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
3 22648039 22654737 - MELO3C026502.2.1 Cme03g01314 323325

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cme03g01314 1168 PRINTS Phytochrome signature 776 796 IPR001294 GO:0006355|GO:0009584
Cme03g01314 1168 PRINTS Phytochrome signature 363 384 IPR001294 GO:0006355|GO:0009584
Cme03g01314 1168 PRINTS Phytochrome signature 756 773 IPR001294 GO:0006355|GO:0009584
Cme03g01314 1168 PRINTS Phytochrome signature 178 200 IPR001294 GO:0006355|GO:0009584
Cme03g01314 1168 PRINTS Phytochrome signature 475 495 IPR001294 GO:0006355|GO:0009584
Cme03g01314 1168 PRINTS Phytochrome signature 683 698 IPR001294 GO:0006355|GO:0009584
Cme03g01314 1168 PRINTS Phytochrome signature 278 297 IPR001294 GO:0006355|GO:0009584
Cme03g01314 1168 PRINTS Phytochrome signature 664 680 IPR001294 GO:0006355|GO:0009584
Cme03g01314 1168 PRINTS Phytochrome signature 593 611 IPR001294 GO:0006355|GO:0009584
Cme03g01314 1168 PRINTS Phytochrome signature 560 579 IPR001294 GO:0006355|GO:0009584
Cme03g01314 1168 PANTHER PHYTOCHROME A 46 1164 - -
Cme03g01314 1168 SMART gaf_1 263 455 IPR003018 GO:0005515
Cme03g01314 1168 PANTHER TWO-COMPONENT HISTIDINE KINASE 46 1164 - -
Cme03g01314 1168 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1050 1160 IPR003594 -
Cme03g01314 1168 Coils Coil 442 462 - -
Cme03g01314 1168 Gene3D - 1001 1166 IPR036890 -
Cme03g01314 1168 PIRSF Phytochrome_conventional 44 1168 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cme03g01314 1168 Pfam GAF domain 266 445 IPR003018 GO:0005515
Cme03g01314 1168 Gene3D PAS domain 119 366 - -
Cme03g01314 1168 ProSiteProfiles Histidine kinase domain profile. 945 1164 IPR005467 -
Cme03g01314 1168 Pfam Phytochrome region 458 632 IPR013515 GO:0006355|GO:0009584
Cme03g01314 1168 ProSiteProfiles PAS repeat profile. 661 731 IPR000014 -
Cme03g01314 1168 SUPERFAMILY PYP-like sensor domain (PAS domain) 119 231 IPR035965 -
Cme03g01314 1168 Gene3D PAS domain 656 793 - -
Cme03g01314 1168 SMART HKATPase_4 1050 1162 IPR003594 -
Cme03g01314 1168 SUPERFAMILY PYP-like sensor domain (PAS domain) 808 914 IPR035965 -
Cme03g01314 1168 SUPERFAMILY GAF domain-like 243 442 - -
Cme03g01314 1168 TIGRFAM sensory_box: PAS domain S-box protein 668 784 IPR000014 -
Cme03g01314 1168 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 996 1157 IPR036890 -
Cme03g01314 1168 SMART HisKA_10 938 1002 IPR003661 GO:0000155|GO:0007165
Cme03g01314 1168 Gene3D - 244 606 IPR029016 -
Cme03g01314 1168 SUPERFAMILY PYP-like sensor domain (PAS domain) 667 774 IPR035965 -
Cme03g01314 1168 MobiDBLite consensus disorder prediction 43 64 - -
Cme03g01314 1168 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 263 435 IPR016132 -
Cme03g01314 1168 Pfam PAS fold 114 230 IPR013654 GO:0006355
Cme03g01314 1168 CDD PAS 805 916 IPR000014 -
Cme03g01314 1168 SMART pas_2 663 729 IPR000014 -
Cme03g01314 1168 SMART pas_2 793 862 IPR000014 -
Cme03g01314 1168 SUPERFAMILY GAF domain-like 453 630 - -
Cme03g01314 1168 Gene3D - 450 623 IPR043150 -
Cme03g01314 1168 ProSiteProfiles PAS repeat profile. 794 846 IPR000014 -
Cme03g01314 1168 Pfam PAS fold 794 916 IPR013767 GO:0006355
Cme03g01314 1168 Pfam PAS fold 664 778 IPR013767 GO:0006355
Cme03g01314 1168 CDD PAS 672 778 IPR000014 -
Cme03g01314 1168 ProSitePatterns Phytochrome chromophore attachment site signature. 363 372 IPR013516 -
Cme03g01314 1168 Gene3D PAS domain 808 922 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cme03g01314 K12120 PHYA; phytochrome A - csv:101208491 2169.43
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cme01g00552 Cme-Chr1:4104281 Cme03g01314 Cme-Chr3:22648039 0 dispersed
Cme03g01314 Cme-Chr3:22648039 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
Cme03g01314 Cme_Chr03 FPKM 135.701019 145.434204 9.315817 9.834249 4.77002 4.637772 4.134314 58.28688 52.308556 53.955044