Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cla05g00707 ATGGTTTCTAGTAATCGAGGGACGCATTCACATCAACAACAAGCACAGTCTTCGAACACGAATACGAGCAATTTGCGATCTCATCGTACAGATTCCATCAGCAAAGCTATAGCGCAGTACACAGCTGATGCTCGTCTTCACGCGGTGTTTGAGCAGTCAGGTGAGTCTGGAAAATCTTTTGACTACTCACAATCTATAAGAACTTCGACTCAATCTGTGCCGGAGCAGCAAATTACTGCTTATTTGTCGAAGATTCAAAGGGGTGGCCATATTCAGCCCTTTGGATGTATGATAGCTATAGAAGAGGCTAGTTTTCGGGTTATTGCATACAGTGAGAACGCGAGGGAATTGCTCGGTCTAACGCCTCAATCAGTGCCGAGCCTTGAAAAACCTGAGATCCTTACAATTGGGACTGATGTACGGAACTTGTTCACTTCCAACAGTGCAATTCTGCTGGAGAAGGCATTTGGGGCTCGAGAAATCACTTTGTTGAACCCGGTTTGGATTCATTCCAAGAATTCTGGGAAGCCCTTTTACGCAATTCTGCATAGGATTGATGTGGGAATTGTGATTGATTTGGAGCCTGCAAGAACGGAGGATCCCGCCCTTTCTATTGCTGGGGCAGTACAATCGCAGAAGCTTGCCGTACGTGCAATTTCTCAGTTACAAGCACTTCCTGGTGGAGATATTAAACTGTTGTGTGATACTGTGGTTGAGAGTGTTAGGGAGCTTACTGGATATGATAGAGTTATGGTGTATAAGTTTCATGAGGATGAGCATGGTGAGGTTGTGGCTGAAAGCAAGAGGCCTGACTTAGAGCCATACATTGGATTGCATTACCCTTCTACTGATATTCCTCAGGCATCAAGGTTTTTGTTTAAGCAAAACCGCGTTAGGATGATTGTTGATTGTCATGCCTCTCCAGTTCGTGTGATTCAGGATGCAGGGCTTATGCAACATCTCTGCTTGGTGGGTTCAACTCTTCGTGCTCCCCATGGCTGCCATGCCCAGTATATGGCCAATATGGGCTCCATTGCTTCATTAGCAATGGCGGTTGTTATCAATGGTAATGATGATGAAGCTATTGGTGGACGAAACTCAATGAGGCTTTGGGGTTTGGTTGTATGCCACCATACTTCTGCTCGGTGTATTCCGTTTCCGCTCCGGTATGCGTGTGAGTTTCTAATGCAAGCCTTCGGGCTTCAACTGAACATGGAGTTGCAGTTGGCTTCACAGATGTCTGAGAAACATGTTTTGAGGACTCAAACTCTCTTGTGTGACATGCTTCTTCGTGATTCCCCAGCTGGCATTGTTACACAGAGTCCAAGCATCATGGACCTAGTAAAGTGTGATGGGGCAGCTCTTTACTATCAAGGGAAATATTACCCTCTGGGTGTGACGCCAACTGAGGCCCAAATAAAGGATATTGTGGAATGGTTGTTGGCTTTCCACGGAGATTCAACTGGTTTAAGTACAGATAGCTTGGCTGATGCTGGATATCCAGGGGCTGCCTTGCTGGGTGATGCAGTTTGTGGAATGGCTGTAGCTTACATCACAAAAAAGGATTTTCTATTTTGGTTCCGATCTCATACAGCAAAAGAGATCAAGTGGGGTGGTGCAAAGCATCACCCAGAGGATAAGGATGATGGTCAAAGAATGCATCCGCGTTCTTCATTCAAGGCATTCTTGGAAGTGGTAAAGTCCCGTAGTTTACCATGGGAGAATGCAGAAATGGACGCAATTCACTCATTGCAGCTTATTCTACGAGATTCATTTAAGGATGATGTGGCAATCAATTCAAAAGCAGTTGTGCACCCTCAACTAGGGGATCTTGACTTGCAAGGGATTGATGAGCTCAGCTCAGTTGCAAGAGAAATGGTCAGGTTGATTGAGACTGCAACTGCTCCTATCTTTGCTGTAGATGCTGATGGTCGTATCAATGGATGGAATGCTAAGATAGCTGAGTTGAGTGGGCTTGCGGTTGAGGAAGCTATGGGGAAATCCTTAGTTCGTGATCTTGTGTACAAAGAATCTGAAGAAATAGTTGACAAACTTGTTTCCCGGGCTTTAAAAGGTGAAGAAGATAAAAGTGTAGAGATAAAAATGAGGACATTTGGGCCAGAAGATCAAAGGACGCCAATCTTTGTTGTTGTAAATGCTTGCTCTAGCAGGGACTACACTGATAATATAGTTGGCGCTTGTTTTGTTGGTCAAGATGTTACCTGCCAAAAAGTGTTCATGGACAAATTTGTTAGCATACAAGGTGATTATAAAGCAATTGTTCATAGTCCCAATCCTCTTATCCCTCCAATATTTGCTTCAGACGACAATACATGTTGCTCAGAATGGAATACTGCCATGGAAAAGCTCACTGGATGGTCCAGGGAGGACATAATTGGAAAAATGCTAGTAGGAGAGGTTTTTGGAAGTTGTTGTCGATTGAAGGGTCCGGATGCATTGACCAAATTTATGATTGTCCTGCATAGTGCAATTGGAGGGCAGGACAATGAAAAATACCCCTTTTCTTTTTATGACAAAAAGGGGAAATATGTTCAGGCTCTCTTAACAGCAAATAAGAGGATGAATATGGAGGGTCAGATTGTTGGAGCTTTCTGCTTCTTACAGATAGCTAGTCCTGAATTGCAGCAAACTCTTAGAATGCAGAGGCAACAGGAGAAGAACCGGTTTGCAAGGATGAAAGAGCTGGCTTACATTTGCCAGGAAGTGAAGAGTCCTTTGAGTGGTATACGCTTTACTAACTCACTTTTGGAGGCTACAGATTTGAGTGAAGATCAAAAGCAGTTCCTTGAGACCAGTGTTGCTTGTGAAAAGCAGATGCTAAAGATTATAGAGGATATGGACTTGGAATGTATTGATGATGGTACGATGGAGCTTGAGAAGGGGGAGTTCTTATTGGGAAGTGTTATTAATGCCGTTGTTAGTCAAGTGATGATACTACTCAGAGAAAGAAACTTACAACTGATTCGTGATATACCAGAAGAAGTAAAGACTATGGCTGTCTATGGAGATCAAGTGAGAATTCAACAGGTCTTAGCTGATTTCTTGTTGAATATGGTCCGTTACGCACCCTCTCCAGAAGGCTGGGTAGAAATACGTGTCTGTCCATTCCTGAAGCAAAACTCAGATGGACTTACTCTTGCACACACTGAATTCAGGATTGTATGCCCTGGGGAAGGTCTACCTCCTGAGTTAGTTCAGGACATGTTTCATAGTGGCAGATGGGTGACTCAAGAAGGATTAGGCTTGAGCATGTGCAGAAAGATTTTGAAGCTAATGAATGGTGAAGTCCAATACATCAGAGAGTCTGAAAGATGTTATTTCTTGATTACTCTTGAACTTCCCTTGACAGAGAGAGGCCTAAACGATGTCGGTTAA 3396 43.73 MVSSNRGTHSHQQQAQSSNTNTSNLRSHRTDSISKAIAQYTADARLHAVFEQSGESGKSFDYSQSIRTSTQSVPEQQITAYLSKIQRGGHIQPFGCMIAIEEASFRVIAYSENARELLGLTPQSVPSLEKPEILTIGTDVRNLFTSNSAILLEKAFGAREITLLNPVWIHSKNSGKPFYAILHRIDVGIVIDLEPARTEDPALSIAGAVQSQKLAVRAISQLQALPGGDIKLLCDTVVESVRELTGYDRVMVYKFHEDEHGEVVAESKRPDLEPYIGLHYPSTDIPQASRFLFKQNRVRMIVDCHASPVRVIQDAGLMQHLCLVGSTLRAPHGCHAQYMANMGSIASLAMAVVINGNDDEAIGGRNSMRLWGLVVCHHTSARCIPFPLRYACEFLMQAFGLQLNMELQLASQMSEKHVLRTQTLLCDMLLRDSPAGIVTQSPSIMDLVKCDGAALYYQGKYYPLGVTPTEAQIKDIVEWLLAFHGDSTGLSTDSLADAGYPGAALLGDAVCGMAVAYITKKDFLFWFRSHTAKEIKWGGAKHHPEDKDDGQRMHPRSSFKAFLEVVKSRSLPWENAEMDAIHSLQLILRDSFKDDVAINSKAVVHPQLGDLDLQGIDELSSVAREMVRLIETATAPIFAVDADGRINGWNAKIAELSGLAVEEAMGKSLVRDLVYKESEEIVDKLVSRALKGEEDKSVEIKMRTFGPEDQRTPIFVVVNACSSRDYTDNIVGACFVGQDVTCQKVFMDKFVSIQGDYKAIVHSPNPLIPPIFASDDNTCCSEWNTAMEKLTGWSREDIIGKMLVGEVFGSCCRLKGPDALTKFMIVLHSAIGGQDNEKYPFSFYDKKGKYVQALLTANKRMNMEGQIVGAFCFLQIASPELQQTLRMQRQQEKNRFARMKELAYICQEVKSPLSGIRFTNSLLEATDLSEDQKQFLETSVACEKQMLKIIEDMDLECIDDGTMELEKGEFLLGSVINAVVSQVMILLRERNLQLIRDIPEEVKTMAVYGDQVRIQQVLADFLLNMVRYAPSPEGWVEIRVCPFLKQNSDGLTLAHTEFRIVCPGEGLPPELVQDMFHSGRWVTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLITLELPLTERGLNDVG 1131
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 6599070 6605017 + ClCG05G006570.1 Cla05g00707 272197

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cla05g00707 1131 ProSitePatterns Phytochrome chromophore attachment site signature. 329 338 IPR013516 -
Cla05g00707 1131 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 229 397 IPR016132 -
Cla05g00707 1131 PANTHER PHYTOCHROME 8 1125 - -
Cla05g00707 1131 Pfam His Kinase A (phospho-acceptor) domain 901 961 IPR003661 GO:0000155|GO:0007165
Cla05g00707 1131 Gene3D - 210 568 IPR029016 -
Cla05g00707 1131 PANTHER TWO-COMPONENT HISTIDINE KINASE 8 1125 - -
Cla05g00707 1131 Gene3D - 412 585 IPR043150 -
Cla05g00707 1131 CDD HisKA 897 953 IPR003661 GO:0000155|GO:0007165
Cla05g00707 1131 Gene3D - 960 1126 IPR036890 -
Cla05g00707 1131 ProSiteProfiles PAS repeat profile. 622 693 IPR000014 -
Cla05g00707 1131 TIGRFAM sensory_box: PAS domain S-box protein 629 741 IPR000014 -
Cla05g00707 1131 Pfam PAS fold 756 875 IPR013767 GO:0006355
Cla05g00707 1131 Pfam PAS fold 625 740 IPR013767 GO:0006355
Cla05g00707 1131 SUPERFAMILY Homodimeric domain of signal transducing histidine kinase 885 953 IPR036097 GO:0000155|GO:0007165
Cla05g00707 1131 PRINTS Phytochrome signature 144 166 IPR001294 GO:0006355|GO:0009584
Cla05g00707 1131 PRINTS Phytochrome signature 244 263 IPR001294 GO:0006355|GO:0009584
Cla05g00707 1131 PRINTS Phytochrome signature 329 350 IPR001294 GO:0006355|GO:0009584
Cla05g00707 1131 PRINTS Phytochrome signature 437 457 IPR001294 GO:0006355|GO:0009584
Cla05g00707 1131 PRINTS Phytochrome signature 522 541 IPR001294 GO:0006355|GO:0009584
Cla05g00707 1131 PRINTS Phytochrome signature 555 573 IPR001294 GO:0006355|GO:0009584
Cla05g00707 1131 PRINTS Phytochrome signature 625 641 IPR001294 GO:0006355|GO:0009584
Cla05g00707 1131 PRINTS Phytochrome signature 644 659 IPR001294 GO:0006355|GO:0009584
Cla05g00707 1131 PRINTS Phytochrome signature 718 735 IPR001294 GO:0006355|GO:0009584
Cla05g00707 1131 PRINTS Phytochrome signature 738 758 IPR001294 GO:0006355|GO:0009584
Cla05g00707 1131 Gene3D PAS domain 769 877 - -
Cla05g00707 1131 SUPERFAMILY PYP-like sensor domain (PAS domain) 627 736 IPR035965 -
Cla05g00707 1131 Gene3D PAS domain 618 749 - -
Cla05g00707 1131 CDD PAS 633 740 IPR000014 -
Cla05g00707 1131 SMART HKATPase_4 1009 1124 IPR003594 -
Cla05g00707 1131 CDD HATPase_Phy-like 1008 1120 IPR044767 -
Cla05g00707 1131 Gene3D PAS domain 84 332 - -
Cla05g00707 1131 SMART pas_2 624 691 IPR000014 -
Cla05g00707 1131 SMART pas_2 755 825 IPR000014 -
Cla05g00707 1131 SUPERFAMILY PYP-like sensor domain (PAS domain) 85 199 IPR035965 -
Cla05g00707 1131 MobiDBLite consensus disorder prediction 1 30 - -
Cla05g00707 1131 SUPERFAMILY PYP-like sensor domain (PAS domain) 770 874 IPR035965 -
Cla05g00707 1131 ProSiteProfiles Histidine kinase domain profile. 904 1124 IPR005467 -
Cla05g00707 1131 SMART HisKA_10 897 961 IPR003661 GO:0000155|GO:0007165
Cla05g00707 1131 SUPERFAMILY GAF domain-like 209 404 - -
Cla05g00707 1131 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 972 1121 IPR036890 -
Cla05g00707 1131 Pfam Phytochrome region 420 593 IPR013515 GO:0006355|GO:0009584
Cla05g00707 1131 Pfam PAS fold 80 196 IPR013654 GO:0006355
Cla05g00707 1131 ProSiteProfiles PAS repeat profile. 756 808 IPR000014 -
Cla05g00707 1131 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1009 1121 IPR003594 -
Cla05g00707 1131 CDD PAS 767 875 IPR000014 -
Cla05g00707 1131 SMART gaf_1 229 417 IPR003018 GO:0005515
Cla05g00707 1131 PIRSF Phytochrome_conventional 12 1129 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cla05g00707 1131 SUPERFAMILY GAF domain-like 415 592 - -
Cla05g00707 1131 Pfam GAF domain 229 407 IPR003018 GO:0005515
Cla05g00707 1131 Gene3D - 878 959 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cla05g00707 K12121 PHYB; phytochrome B - csv:101212197 2216.42
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cla03g00672 Cla-Chr3:8144024 Cla05g00707 Cla-Chr5:6599070 0 dispersed
Cla05g00707 Cla-Chr5:6599070 Cla08g00910 Cla-Chr8:21593105 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
Cla10g00064 . 5 1220 Histidine Kinase Gene Family AT2G17820 64.2 0.0e+00 1453.0
Cla11g00097 . 20 1004 Histidine Kinase Gene Family AT2G01830 71.6 0.0e+00 1344.7
Cla01g00654 . 24 981 Histidine Kinase Gene Family AT2G01830 67.6 0.0e+00 1238.8
Cla02g00275 . 279 1266 Histidine Kinase Gene Family AT2G01830 51.8 1.9e-269 926.0
Cla06g00204 . 97 1043 Histidine Kinase Gene Family AT2G01830 52.6 4.4e-263 904.8
Cla02g00917 . 304 1273 Histidine Kinase Gene Family AT2G01830 50.8 1.2e-260 896.7
Cla05g01652 . 1 997 Histidine Kinase Gene Family AT5G10720 57.3 8.8e-292 1000.0
Cla08g00910 . 156 1275 Histidine Kinase Gene Family AT1G09570 80.1 0.0e+00 1829.3
Cla08g00913 . 12 1104 Histidine Kinase Gene Family AT1G09570 71.7 0.0e+00 1574.7
Cla05g00707 . 34 1120 Histidine Kinase Gene Family AT1G09570 54.4 0.0e+00 1196.0
Cla02g00291 . 97 1176 Histidine Kinase Gene Family AT1G09570 54.1 0.0e+00 1180.6
Cla05g00707 . 13 1061 Histidine Kinase Gene Family AT2G18790 78.8 0.0e+00 1670.6
Cla03g00672 . 31 1051 Histidine Kinase Gene Family AT2G18790 60.8 0.0e+00 1243.0
Cla08g00910 . 176 1209 Histidine Kinase Gene Family AT2G18790 53.4 0.0e+00 1087.8
Cla02g00291 . 105 1133 Histidine Kinase Gene Family AT2G18790 51.7 4.8e-308 1054.3
Cla08g00913 . 12 1038 Histidine Kinase Gene Family AT2G18790 50.9 9.4e-304 1040.0
Cla02g00291 . 91 1180 Histidine Kinase Gene Family AT5G35840 60.8 0.0e+00 1335.9
Cla05g00707 . 21 1122 Histidine Kinase Gene Family AT5G35840 52.9 0.0e+00 1152.5
Cla08g00910 . 164 1269 Histidine Kinase Gene Family AT5G35840 51.8 0.0e+00 1114.8
Cla05g00707 . 30 1122 Histidine Kinase Gene Family AT4G16250 76.7 0.0e+00 1708.7
Cla03g00672 . 32 1113 Histidine Kinase Gene Family AT4G16250 59.0 0.0e+00 1282.7
Cla08g00910 . 163 1270 Histidine Kinase Gene Family AT4G16250 52.8 0.0e+00 1135.6
Cla02g00291 . 105 1179 Histidine Kinase Gene Family AT4G16250 52.0 0.0e+00 1095.5
Cla03g00672 . 15 1113 Histidine Kinase Gene Family AT4G18130 63.2 0.0e+00 1370.5
Cla05g00707 . 38 1120 Histidine Kinase Gene Family AT4G18130 58.9 0.0e+00 1272.7
       

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
Cla05g00707 Cla_Chr05 FPKM 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0