Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Bma01g00611 ATGTCTTCTTCAAGACCGAGTCAATCATCAAGCAACTCAGGTCGATCAAGACACAGTGCTAGAATAATTGCTCAGACTACTGTAGATGCAAAACTTCATGCAAATTATGAAGAATCCAGTAGTTCTTTCGACTACTCAAGTTCAGTGCGGTTTACCAATGCTTTTGGTGAAGATCAACGACCCAAGTCTGACAAAGTCACAACAGCTTACCTCCATCACATACAAAAAGGCAAGCATATCCAGCCATTTGGCTGCTTGTTGGCTTTAGATGAGAAAACCTTCAAAGTCATTGCATACAGTGAAAATGCCACGGAAATGCTAACTATGGTGAGTCATGCAGTCCCAAGTGTTGGTGATCACCCAGTTCTTGGCTTTGGAATTGATTTTTGGTCCATTTTTACTCCCCCAAGCGCCTCAGCCTTGCAGAAGGTTCTTGGTTTCGGAGAGGTTACTCTTCTGAATCCTGTATTAGTTCATTGTAAGACATCTGGGAGGCCCTTCTATGCAATCGTTCATCGTGTTACCGGCAGCTTGATCATTGATTTTGAACCAGTGAAGCCTTATGAAATACCAATGACTGCAGCTGGGGCCCTACAATCTTACAGGCTTGCAGCAAAAGCAATTAACAGATTGCAGTCTCTGCCCAGTGGGAGCATGGAAAGACTTTGTCATACAATGGTTCAAGAGGTTTATGAACTCACAGGCTATGACAGAGTGATGGTCTACAAATTTCACGATGATGACCATGGGGAAGTGGTCTCCGAAGTCACAAAGCCCGGGTTGGAGCCATATCTGGGGTTACACTATCCAGCTACTGATATCCCTCAAGCTGCACGGTTTTTATTCATGAAGAATAAGGTCCGAATTATTGTTGATTGTCGTGCAAAACCTGTGAAAGTGCTCCAAGACGAGAAACTTTCGTTTGATCTAACTTTATGTGGTTCAACTTTAAGGGCCCCTCATAGTTGCCATTTGCAGTACATGGAGAACATGAATTCCATTGCTTCTCTGGCAATGGCTGTTGTGGTCAACGAGGAAGATGACGAGAATGACAATCCCAATTCCGTGCTGCCACAAAAGAGAAAGAGATTATGGGGTTTAGTAGTGTGCCATAACACAACCCCAAGGTTTGTACCATTCCCTCTAAGATATGCATGTGAATTTCTCGCCCAAGTATTTGGCATCCATGTCAACAAAGAATTAGAGCTGGAAAATCAGATTGTTGAAAAAAACATTCTACGCACACAAACACTCTTGTGCGACATGTTAATGCGGGACGCACCCTTAGGCATTGTAACACAGAGCCCGAATATAATGGATCTTGTGAAATGTGATGGAGCTGCCATGATATACAAAAATCAGGTATGGAGATTGGGAATAACTCCTAGTGAATTCCAGCTCCAAGAAATTGCAGCGTGGCTTTCTGAGCATCATATGGATTCGACTGGATTAAGCACAGATAGTTTGTACGATGCGGGTTTCCCAGGGGCTCTCGCTCTTGGTGATGGAGTGTGTGGAATGGCGACAGTTCGGATAACTTCCAAGGACATGATTTGTTGGTTCCGTACCCATGCTGTCGCGGAAATTCGATGGGGTGGGGCAAAGCATGAAGCTGGTGAAGAGGACGACGGTAGGAAAATGCATCCAAGATCATCTTTCAAAGCTTTTCTTGAAGTAGTTGAAAGGAGAAGTTTTCCCTGGAAGGACTATGAAATGGATGCAATCCATTCCCTGCAGCTTATATTGAGGAATGCACTGAAAGATATGCAAATGGTTGATACGAACAGCAAATCAATTCATGCAAAACTCAGCAACCTCAAGATTGGGGGGATGCAAGAACTAGAAGCAGTTACTGGAGAGATTGTCCGTTTGATTGAGACAGCCATGGTGCCTATTTTGGCTGTTGACGGAGAGGGGCTAGTTAATGGCTGGAATATGAAAATTGCTGAGTTAACTGGTCTTCCTGTTGAGAAAGCAATCGGAAAGCATTTTCTCTCTCTTGTGGAGGATTCTTCAGTAGATATAGTCAAGAAGATGTTGTACCTAGCGTTCCAAGGACAAGAGGAGAAAAACGTAGAATTTGAGATCAGAACTCACGGGCCTAGGATCGATGCAGGTCCCATTAGCTTAGTTGTGAACGCTTGTGCAAGCAGGGATTTGGAGGAAAATGTTGTTGGAGTGTGTTTTGTGGCTCAAGATATCACTGTTCAGAAGACAGTGATGGACAAGTTCACACGGATAGAAGGTGATTACAAAGCAATTGTGCAGAACCCAAATCCATTAATACCCCCTATATTTGGCATAGATGAATTTGGCTGGTGCACAGAATGGAACCCAGCAATGACAAAGTTAAGTGGGTGGAAGCGAGATGATGTTGTTGATAAAATACTCTTGGGAGAGGTCTTTGGGAACCAAATGGCCTGCTGTCGAGTCAAGAATCAAGAATTGTGCGTAAATCTTGGTGTAGTCCTTAATAATGCTATGAGTGGCCAAAATCCCGAAAAGATTTCTTTTGGTTTCTATGATCGGAAAGGAAAATACATAGAATGTCTGTTGTGTGTGAGTAAGAAAACAGACAGAGATGGTGTAGTGACTGGAATTTTTTGCTTTTTGCAACTTCCTAGCTTAGAGTTGCAGAAAGCACTCCATGTGCAGCACTTAGCCGAGAAAACTGCCATAAAGAGATCGAAAACATTAGGATATATAAAAAGGCAGATAGGAAGTTCTTTATCTGGCATCATATATTCTAGTGAAATGTTGGAGGGTACTGCATTGGAAGTAGAACAGAAACATCTTCTGCAAACAAGCACACAGTGCCAGCGGCAGCTCAGCAAGGTCCTTGATGACTCAGATCTTGATAGAATCTTTGATGGCTTTTTGGATCTTGAAATGGTTCAGTTTTCTCTACATGAAGTATTGGCGGCTTCGATCAGCCAAGTCATGATGAAGAGCAGAGAAAAGGGTGTTCTCGTACTAAATGAGACTGCTAAAGAGATCCAGAATGAAGCTCTATACGGTGATAATGCGAGGCTTCAGCAAGTGTTGGCTGATTTCTTACTAATATCAGTCAGCTTTTCTCCAGCAGGCGGCCAGATTATTATTTCGGCCAGTCTAACAAAAGATCAATTAGGCCAATCCATAGATCTAGCACATCTGAAGTTCAGAATAACCCAAGCAGGTGGAATACCAGCAGCGCTGCTAAATGAATTGTTTGAAAACAATGAAGACAGATCTGAAGAAGGGGTCAGCTTGCTTGTTAGCAGAAAGCTGATGAAGCTCATGAATGGAGATGTGCAATATCTGAGAGAAGAAGGCAAGTCTACATTCATCATATCTGTCGAGCTTGCGGCAGGCCACATGCCAATTTAG 3369 43.1 MSSSRPSQSSSNSGRSRHSARIIAQTTVDAKLHANYEESSSSFDYSSSVRFTNAFGEDQRPKSDKVTTAYLHHIQKGKHIQPFGCLLALDEKTFKVIAYSENATEMLTMVSHAVPSVGDHPVLGFGIDFWSIFTPPSASALQKVLGFGEVTLLNPVLVHCKTSGRPFYAIVHRVTGSLIIDFEPVKPYEIPMTAAGALQSYRLAAKAINRLQSLPSGSMERLCHTMVQEVYELTGYDRVMVYKFHDDDHGEVVSEVTKPGLEPYLGLHYPATDIPQAARFLFMKNKVRIIVDCRAKPVKVLQDEKLSFDLTLCGSTLRAPHSCHLQYMENMNSIASLAMAVVVNEEDDENDNPNSVLPQKRKRLWGLVVCHNTTPRFVPFPLRYACEFLAQVFGIHVNKELELENQIVEKNILRTQTLLCDMLMRDAPLGIVTQSPNIMDLVKCDGAAMIYKNQVWRLGITPSEFQLQEIAAWLSEHHMDSTGLSTDSLYDAGFPGALALGDGVCGMATVRITSKDMICWFRTHAVAEIRWGGAKHEAGEEDDGRKMHPRSSFKAFLEVVERRSFPWKDYEMDAIHSLQLILRNALKDMQMVDTNSKSIHAKLSNLKIGGMQELEAVTGEIVRLIETAMVPILAVDGEGLVNGWNMKIAELTGLPVEKAIGKHFLSLVEDSSVDIVKKMLYLAFQGQEEKNVEFEIRTHGPRIDAGPISLVVNACASRDLEENVVGVCFVAQDITVQKTVMDKFTRIEGDYKAIVQNPNPLIPPIFGIDEFGWCTEWNPAMTKLSGWKRDDVVDKILLGEVFGNQMACCRVKNQELCVNLGVVLNNAMSGQNPEKISFGFYDRKGKYIECLLCVSKKTDRDGVVTGIFCFLQLPSLELQKALHVQHLAEKTAIKRSKTLGYIKRQIGSSLSGIIYSSEMLEGTALEVEQKHLLQTSTQCQRQLSKVLDDSDLDRIFDGFLDLEMVQFSLHEVLAASISQVMMKSREKGVLVLNETAKEIQNEALYGDNARLQQVLADFLLISVSFSPAGGQIIISASLTKDQLGQSIDLAHLKFRITQAGGIPAALLNELFENNEDRSEEGVSLLVSRKLMKLMNGDVQYLREEGKSTFIISVELAAGHMPI 1122
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 5522148 5526604 - Bma000816.1 Bma01g00611 75128

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Bma01g00611 1122 SUPERFAMILY PYP-like sensor domain (PAS domain) 623 730 IPR035965 -
Bma01g00611 1122 SMART HKATPase_4 1006 1117 IPR003594 -
Bma01g00611 1122 Pfam Phytochrome region 414 588 IPR013515 GO:0006355|GO:0009584
Bma01g00611 1122 PANTHER PHYTOCHROME A 1 1118 - -
Bma01g00611 1122 Gene3D - 406 579 IPR043150 -
Bma01g00611 1122 SUPERFAMILY PYP-like sensor domain (PAS domain) 764 870 IPR035965 -
Bma01g00611 1122 CDD PAS 761 872 IPR000014 -
Bma01g00611 1122 Pfam PAS fold 750 872 IPR013767 GO:0006355
Bma01g00611 1122 Pfam PAS fold 620 734 IPR013767 GO:0006355
Bma01g00611 1122 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 218 391 IPR016132 -
Bma01g00611 1122 SMART gaf_1 218 411 IPR003018 GO:0005515
Bma01g00611 1122 PRINTS Phytochrome signature 639 654 IPR001294 GO:0006355|GO:0009584
Bma01g00611 1122 PRINTS Phytochrome signature 549 567 IPR001294 GO:0006355|GO:0009584
Bma01g00611 1122 PRINTS Phytochrome signature 620 636 IPR001294 GO:0006355|GO:0009584
Bma01g00611 1122 PRINTS Phytochrome signature 516 535 IPR001294 GO:0006355|GO:0009584
Bma01g00611 1122 PRINTS Phytochrome signature 431 451 IPR001294 GO:0006355|GO:0009584
Bma01g00611 1122 PRINTS Phytochrome signature 732 752 IPR001294 GO:0006355|GO:0009584
Bma01g00611 1122 PRINTS Phytochrome signature 233 252 IPR001294 GO:0006355|GO:0009584
Bma01g00611 1122 PRINTS Phytochrome signature 133 155 IPR001294 GO:0006355|GO:0009584
Bma01g00611 1122 PRINTS Phytochrome signature 712 729 IPR001294 GO:0006355|GO:0009584
Bma01g00611 1122 PRINTS Phytochrome signature 318 339 IPR001294 GO:0006355|GO:0009584
Bma01g00611 1122 MobiDBLite consensus disorder prediction 1 22 - -
Bma01g00611 1122 ProSitePatterns Phytochrome chromophore attachment site signature. 318 327 IPR013516 -
Bma01g00611 1122 PIRSF Phytochrome_conventional 1 1120 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Bma01g00611 1122 PANTHER TWO-COMPONENT HISTIDINE KINASE 1 1118 - -
Bma01g00611 1122 Gene3D - 199 562 IPR029016 -
Bma01g00611 1122 SUPERFAMILY GAF domain-like 409 588 - -
Bma01g00611 1122 Gene3D - 957 1118 IPR036890 -
Bma01g00611 1122 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1006 1115 IPR003594 -
Bma01g00611 1122 CDD PAS 630 734 IPR000014 -
Bma01g00611 1122 ProSiteProfiles PAS repeat profile. 617 687 IPR000014 -
Bma01g00611 1122 Coils Coil 398 418 - -
Bma01g00611 1122 Gene3D PAS domain 74 321 - -
Bma01g00611 1122 Pfam GAF domain 218 401 IPR003018 GO:0005515
Bma01g00611 1122 SUPERFAMILY GAF domain-like 197 398 - -
Bma01g00611 1122 TIGRFAM sensory_box: PAS domain S-box protein 624 739 IPR000014 -
Bma01g00611 1122 SMART pas_2 749 818 IPR000014 -
Bma01g00611 1122 SMART pas_2 619 685 IPR000014 -
Bma01g00611 1122 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 951 1112 IPR036890 -
Bma01g00611 1122 Gene3D PAS domain 763 873 - -
Bma01g00611 1122 ProSiteProfiles PAS repeat profile. 750 802 IPR000014 -
Bma01g00611 1122 ProSiteProfiles Histidine kinase domain profile. 901 1117 IPR005467 -
Bma01g00611 1122 Pfam PAS fold 69 185 IPR013654 GO:0006355
Bma01g00611 1122 SUPERFAMILY PYP-like sensor domain (PAS domain) 74 186 IPR035965 -
Bma01g00611 1122 Gene3D PAS domain 580 748 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Bma01g00611 K12120 PHYA; phytochrome A - tcc:18600656 1791.16
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Bma01g00611 Bma-Chr1:5522148 Bma12g00850 Bma-Chr12:39312161 0 dispersed
Bma01g00611 Bma-Chr1:5522148 Bma05g00993 Bma-Chr5:48415383 0 transposed
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Bma03g00954 . 186 1234 Histidine Kinase Gene Family AT2G17820 65.1 0.0e+00 1264.2
Bma14g01923 . 17 996 Histidine Kinase Gene Family AT2G01830 72.3 0.0e+00 1345.9
Bma04g00854 . 73 1029 Histidine Kinase Gene Family AT2G01830 52.9 9.1e-273 936.8
Bma02g01307 . 303 1275 Histidine Kinase Gene Family AT2G01830 51.4 5.5e-270 927.5
Bma01g00611 . 1 1119 Histidine Kinase Gene Family AT1G09570 76.7 0.0e+00 1754.2
Bma12g00850 . 12 1119 Histidine Kinase Gene Family AT1G09570 55.5 0.0e+00 1253.4
Bma05g00993 CCT 34 1122 Histidine Kinase Gene Family AT1G09570 53.8 0.0e+00 1171.0
Bma06g01466 CCT 29 1111 Histidine Kinase Gene Family AT1G09570 53.1 0.0e+00 1157.5
Bma01g01487 BCT 29 1105 Histidine Kinase Gene Family AT1G09570 51.1 4.8e-314 1073.9
Bma05g00993 CCT 12 1058 Histidine Kinase Gene Family AT2G18790 78.0 0.0e+00 1629.4
Bma06g01466 CCT 30 1084 Histidine Kinase Gene Family AT2G18790 74.6 0.0e+00 1598.2
Bma01g01487 BCT 8 1043 Histidine Kinase Gene Family AT2G18790 62.5 0.0e+00 1290.4
Bma14g00963 BCT 1 1025 Histidine Kinase Gene Family AT2G18790 58.5 0.0e+00 1215.7
Bma12g00850 . 23 1074 Histidine Kinase Gene Family AT2G18790 53.5 0.0e+00 1110.9
Bma01g00611 . 21 1055 Histidine Kinase Gene Family AT2G18790 51.2 8.4e-309 1056.6
Bma12g00850 . 10 1115 Histidine Kinase Gene Family AT5G35840 62.3 0.0e+00 1401.0
Bma05g00993 CCT 37 1118 Histidine Kinase Gene Family AT5G35840 52.1 0.0e+00 1116.7
Bma06g01466 CCT 21 1109 Histidine Kinase Gene Family AT5G35840 51.4 0.0e+00 1111.3
Bma01g00611 . 9 1114 Histidine Kinase Gene Family AT5G35840 50.2 0.0e+00 1097.8
Bma05g00993 CCT 8 1118 Histidine Kinase Gene Family AT4G16250 74.4 0.0e+00 1654.8
Bma06g01466 CCT 30 1108 Histidine Kinase Gene Family AT4G16250 74.0 0.0e+00 1619.8
Bma01g01487 BCT 29 1105 Histidine Kinase Gene Family AT4G16250 60.8 0.0e+00 1318.5
Bma14g00963 BCT 15 1087 Histidine Kinase Gene Family AT4G16250 57.0 0.0e+00 1237.2
Bma12g00850 . 24 1115 Histidine Kinase Gene Family AT4G16250 52.4 0.0e+00 1137.1
Bma01g01487 BCT 7 1106 Histidine Kinase Gene Family AT4G18130 64.5 0.0e+00 1409.8
Bma14g00963 BCT 19 1088 Histidine Kinase Gene Family AT4G18130 62.1 0.0e+00 1331.2
Bma05g00993 CCT 37 1119 Histidine Kinase Gene Family AT4G18130 58.6 0.0e+00 1250.3
Bma06g01466 CCT 38 1108 Histidine Kinase Gene Family AT4G18130 58.1 0.0e+00 1243.4
       

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
Bma01g00611 Bma_Chr01 FPKM 5.147856 6.042568 0.826834 1.029687 7.276986 6.831517 10.354678 7.057477 6.722816 7.200733