Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cla03g00672 ATGGACAAGAATCGGAGTGGAGAGCGACGAATGGCGGCGTTTTCCTCTTCGGCGGATAGCAATACTAGGGCTCGTCCTAGCACCACCACTAGCACCGACAACAGACTTGCCGTACTTGTCAAATACAATGTCGATGCTGGGCTTTTGAACAAGTTTGAGCTCTCGGATGCATCTGGTGAGTCTTTTAACTATTCCAGATCAGTTCTTGATGCTCCTGTTTCTGTACCCGAAGAACAAATTACTGCCTATTTGTCTAAGATTCAGAGGGGTGGGTTGGTTCAACCCTTTGGTTGTTTGCTTGCCATTGAAGAATCTAGTTTTAAGATTATTAGTTATAGTGAGAATTGTTTTGAATTATTGGGGCTTAATGATCAATTTGGGTCGGCACAGGGTAAGGGTCTGATTGGGGTTGATATGAGAGCTCTGTTTACGCCTTCCTCCGGTGCTTCTTTGGTGAAAGCGGCTTTGTCCAGGGAGATTTCGCTGTTGAACCCTGTTTGGGTCCATTCTAGGACTACCCAGAAGCCATTTTATGCTATATTGCATAGAATTGATGTGGGGATTATATTTGATTTGGAGCCTGCACGGTCTGTTGATCCTGCATTGTCGCTTGCAGGTGCTGTGCAGTCACAGAAACTTGCAGTTCGAGCGATTTCCAGGTTGCAGGCTCTACCTAGTGGTGATATTGGTATTCTATGTGATACGGTTGTTGAAGATGTTCAAAAGCTTACAGGGTATGATAGAGTGATGGTGTATAAGTTCCACAATGATGAACATGGTGAAGTAGTGTCAGAAATCAGAAGGTCAGACTTAGAGCCATACCTGGGTTTGCATTATCCTGCCATTGATATACCTCAAGCGGCTCGTTTTTTGTTCAAGCAGAACCGCGTCAGGATGATTTGTGATTGCCATGCGAAGCCTGTGCAGGTCGTTCAAAGTGATGAACTAAAGCAGCCTCTTTGTTTGGTGAATTCAACACTAAGAGCACCATATAGCTGTCATTTGCAATACATGGCAAATATGGGTTCCTTAGCTTCATTAGTGATGGCAGTAATCGTGAATAGTGATGACTCACCAACAAAGCTATGGGGCCTGGTAGTGTGCCACCATACTTCTCCTCGATATGTCCCTTTCCCACTTCGTTATGCCTGTGAGTTTCTCATGCAGGCCTTCGGGCTGCAGCTTTACATGGAACTTCAATTGGCATTACAATTAACAGAGAAAAGAATCCTCAAGACACAAACTTTACTTTGTGACATGCTTCTCCGAGGCTCCCCTTATTCATTGGTGACTCAGTCTCCTAGTATAATGGATATTGTGAAGTGCGATGGTGCTGCATTGTACTATAACGGGGCATGTTGTTTATTAGGTGTAACTCCAACCAAAGCACAAGTCAAAGATCTTGCTGAGTGGATACTAAATAACCATGGGGATTCTACGGGGCTGAGCACGGATAGTTTGGCTGATGCTGGCTACCCTGAAGCTGCTTCACTAGGTGATGCTGTGTGTGGTATGGCAGCTGCAAGAATCACTTCAAAGGATTTCTTATTCTGGTTCAGGTCCCATGCTGCAAAGGAAATTCAATGGGGAGGAGCCAAGCATCATCCAGATGATAAGGATGATTGTGGACGAATGCACCCGAGATCATCATTTAAAGCATTTCTTGAAGTTGCAAAGAGTAGAAGTTTGTCTTGGGAAGTTCAAGAAATAAATGCCATTCACTCATTGCAGCTCATAATGAGGGAGTCTTTTCTGAATGCTAGGGACAGTAATTTAAAGGCAGAACATTCTGTCCAGTTGAGTGATGCTGAGATCCAGGATATCAATGAACTCAGTTCAGTAGCTTGTGAAATGGTTAGGTTGATTGAAACAGCAACTGTTCCAATTTTGGGGGTTGACTCAACTGGTTTGATCAATGGATGGAATGCTAAAATTTCTGAACTTGTGGGATTACAAACTGGAGAAGCTTTGGGGAAATCTCTGGTTAATGAAATTGTTCATGAAGATTCACGTGGAACTGTGGAAGATTTACTTTCCCATGCTCTGCAAGGTAAGGAAGACAAAAATGTGGAGTTAAAACTGAGAAGTTTTGGAACTGGCAAAGAAAAGTCTAACGTGTATATTGTAGTTAATGCTTGCACAAGTAGAGATTACACAAACAAAGTTGTTGGAGTTTGCTTTGTTGGGCAAGATCTTACATCCGAGAAAGGTGTGATGGATAAATTTATCCGTCTACAGGGAGATTATAAGACTATTGTTGAAAGTCTGAGTCCATTGATTCCTCCAATGTTTGTTTCCGACGAGAATGGTTACTGCTACGAATGGACTGCAGCCATGGAAAAACTTACTGGTTGGAGGAAAAATGAAGTTATAGGAAAAATGCTAGCTGGGGAGATCTTTGGGAATTTTTGTAGGTTGAAAGGTTTAGATACCCTCACTAGGTTTATGATTCTATTATATCAAGGTATTAGTGGTGAAGTAACCGAAAAGTTTCCATTAGGATTTTTCAACAAGGATGGGAATTATGTAGATGTGTTGTTAACATCGAACAAGAGAACTGATGCCGAAGGAAATGCCATTGGTTGTATCTGCTTCCTGCAAATTGTTCAGCCCAACTTACATGGGGTCTTAGAAGGACTTGGGACGGGTGATAGGGAGGGCATTCTGCAGCATAAGGAATTGAGCTTCTTAAAGCATGAGATGAAAAATCCTTTAAATGGCCTTAGATTTACTCATGAACTCCTCGTAAATTCTGGCATTACAGAAAACCAGAAACTCTTCCTTGATACTAGTGATGCATGCGAGAGACAAATCATGACAATCATAGAGGATATGGACTTAAGAAGTTTAGAAAGAGGCCAAGTAGAGATAAACAGAGAAGAATTTCTCCTCGGGAGTGTTCTGGATGCCATTATCTGTCAAATCATGATTGTTGTCAGAGAGAGGAACATTCAACTTTTTCATGAAATTCCAGAAGAAATCAAAACTTTAACTCTTTGTGGCGATCAAATTAAGCTTCAGATGGTTTTGTCAGATTTCTTACTCAACGCAGTCCAGTATGCGCCTGTTCTGGATGGTTGGGTTGAAATCAAAATTTCTTCTGGCTTGAAGCTTATACAAGATGGAAATGAACATATTCAATTGCAGATCAGAATGTCACATCCAGGTCAAGGTTTGCCTCCTGAACTAATCCAGGATATGGTTGGAGGAGGACAACAGTTGACTTCAGAGCAAGGCCTGACCCTAAACCTATCACGCAGACTTCTCAATAAACTGAACGGTAATGTCCGTTATGTTAGAGAGCAAACCAAATGCTACTTCCTCATCGATCTCGAACTCATGTTAAGGCGCTCAAGGGGGTCGATGGAAGCTACAACAAGCCAAAGGACTTGA 3393 42.2 MDKNRSGERRMAAFSSSADSNTRARPSTTTSTDNRLAVLVKYNVDAGLLNKFELSDASGESFNYSRSVLDAPVSVPEEQITAYLSKIQRGGLVQPFGCLLAIEESSFKIISYSENCFELLGLNDQFGSAQGKGLIGVDMRALFTPSSGASLVKAALSREISLLNPVWVHSRTTQKPFYAILHRIDVGIIFDLEPARSVDPALSLAGAVQSQKLAVRAISRLQALPSGDIGILCDTVVEDVQKLTGYDRVMVYKFHNDEHGEVVSEIRRSDLEPYLGLHYPAIDIPQAARFLFKQNRVRMICDCHAKPVQVVQSDELKQPLCLVNSTLRAPYSCHLQYMANMGSLASLVMAVIVNSDDSPTKLWGLVVCHHTSPRYVPFPLRYACEFLMQAFGLQLYMELQLALQLTEKRILKTQTLLCDMLLRGSPYSLVTQSPSIMDIVKCDGAALYYNGACCLLGVTPTKAQVKDLAEWILNNHGDSTGLSTDSLADAGYPEAASLGDAVCGMAAARITSKDFLFWFRSHAAKEIQWGGAKHHPDDKDDCGRMHPRSSFKAFLEVAKSRSLSWEVQEINAIHSLQLIMRESFLNARDSNLKAEHSVQLSDAEIQDINELSSVACEMVRLIETATVPILGVDSTGLINGWNAKISELVGLQTGEALGKSLVNEIVHEDSRGTVEDLLSHALQGKEDKNVELKLRSFGTGKEKSNVYIVVNACTSRDYTNKVVGVCFVGQDLTSEKGVMDKFIRLQGDYKTIVESLSPLIPPMFVSDENGYCYEWTAAMEKLTGWRKNEVIGKMLAGEIFGNFCRLKGLDTLTRFMILLYQGISGEVTEKFPLGFFNKDGNYVDVLLTSNKRTDAEGNAIGCICFLQIVQPNLHGVLEGLGTGDREGILQHKELSFLKHEMKNPLNGLRFTHELLVNSGITENQKLFLDTSDACERQIMTIIEDMDLRSLERGQVEINREEFLLGSVLDAIICQIMIVVRERNIQLFHEIPEEIKTLTLCGDQIKLQMVLSDFLLNAVQYAPVLDGWVEIKISSGLKLIQDGNEHIQLQIRMSHPGQGLPPELIQDMVGGGQQLTSEQGLTLNLSRRLLNKLNGNVRYVREQTKCYFLIDLELMLRRSRGSMEATTSQRT 1130
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
3 8144024 8149941 + ClCG03G007180.1 Cla03g00672 269172

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cla03g00672 1130 SUPERFAMILY GAF domain-like 208 395 - -
Cla03g00672 1130 SMART HKATPase_4 1001 1113 IPR003594 -
Cla03g00672 1130 ProSiteProfiles PAS repeat profile. 614 685 IPR000014 -
Cla03g00672 1130 Pfam GAF domain 230 399 IPR003018 GO:0005515
Cla03g00672 1130 Pfam PAS fold 748 867 IPR013767 GO:0006355
Cla03g00672 1130 Pfam PAS fold 617 731 IPR013767 GO:0006355
Cla03g00672 1130 MobiDBLite consensus disorder prediction 10 30 - -
Cla03g00672 1130 ProSiteProfiles PAC domain profile. 688 744 IPR000700 -
Cla03g00672 1130 Pfam Phytochrome region 412 587 IPR013515 GO:0006355|GO:0009584
Cla03g00672 1130 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 228 389 IPR016132 -
Cla03g00672 1130 Gene3D - 404 577 IPR043150 -
Cla03g00672 1130 CDD HisKA 894 949 IPR003661 GO:0000155|GO:0007165
Cla03g00672 1130 Gene3D - 931 1107 IPR036890 -
Cla03g00672 1130 CDD PAS 625 732 IPR000014 -
Cla03g00672 1130 Gene3D PAS domain 615 736 - -
Cla03g00672 1130 SUPERFAMILY GAF domain-like 407 586 - -
Cla03g00672 1130 SUPERFAMILY PYP-like sensor domain (PAS domain) 87 196 IPR035965 -
Cla03g00672 1130 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 954 1112 IPR036890 -
Cla03g00672 1130 SMART gaf_1 228 409 IPR003018 GO:0005515
Cla03g00672 1130 TIGRFAM sensory_box: PAS domain S-box protein 621 736 IPR000014 -
Cla03g00672 1130 MobiDBLite consensus disorder prediction 1 30 - -
Cla03g00672 1130 SMART pas_2 747 817 IPR000014 -
Cla03g00672 1130 SMART pas_2 616 683 IPR000014 -
Cla03g00672 1130 Gene3D PAS domain 86 331 - -
Cla03g00672 1130 SUPERFAMILY PYP-like sensor domain (PAS domain) 762 866 IPR035965 -
Cla03g00672 1130 SMART HisKA_10 889 953 IPR003661 GO:0000155|GO:0007165
Cla03g00672 1130 Pfam His Kinase A (phospho-acceptor) domain 894 953 IPR003661 GO:0000155|GO:0007165
Cla03g00672 1130 PRINTS Phytochrome signature 429 449 IPR001294 GO:0006355|GO:0009584
Cla03g00672 1130 PRINTS Phytochrome signature 143 165 IPR001294 GO:0006355|GO:0009584
Cla03g00672 1130 PRINTS Phytochrome signature 243 262 IPR001294 GO:0006355|GO:0009584
Cla03g00672 1130 PRINTS Phytochrome signature 514 533 IPR001294 GO:0006355|GO:0009584
Cla03g00672 1130 PRINTS Phytochrome signature 328 349 IPR001294 GO:0006355|GO:0009584
Cla03g00672 1130 PRINTS Phytochrome signature 547 565 IPR001294 GO:0006355|GO:0009584
Cla03g00672 1130 PRINTS Phytochrome signature 617 633 IPR001294 GO:0006355|GO:0009584
Cla03g00672 1130 PRINTS Phytochrome signature 710 727 IPR001294 GO:0006355|GO:0009584
Cla03g00672 1130 PRINTS Phytochrome signature 730 750 IPR001294 GO:0006355|GO:0009584
Cla03g00672 1130 PRINTS Phytochrome signature 636 651 IPR001294 GO:0006355|GO:0009584
Cla03g00672 1130 CDD PAS 759 867 IPR000014 -
Cla03g00672 1130 PANTHER TWO-COMPONENT HISTIDINE KINASE 36 1118 - -
Cla03g00672 1130 Gene3D - 209 560 IPR029016 -
Cla03g00672 1130 SUPERFAMILY PYP-like sensor domain (PAS domain) 620 728 IPR035965 -
Cla03g00672 1130 PIRSF Phytochrome_conventional 14 1122 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cla03g00672 1130 Pfam PAS fold 82 195 IPR013654 GO:0006355
Cla03g00672 1130 PANTHER PHYTOCHROME E 36 1118 - -
Cla03g00672 1130 Gene3D PAS domain 762 872 - -
Cla03g00672 1130 ProSiteProfiles Histidine kinase domain profile. 896 1115 IPR005467 -
Cla03g00672 1130 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1001 1111 IPR003594 -
Cla03g00672 1130 ProSiteProfiles PAS repeat profile. 748 800 IPR000014 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cla03g00672 K12123 PHYE; phytochrome E - csv:101214900 2067.74
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cla03g00672 Cla-Chr3:8144024 Cla05g00707 Cla-Chr5:6599070 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
Vvi10g343 . . . . . . Bma14g00963 Bma01g01487 . Cmo18g00427 . . . . . Cpe09g00775 . . . . . . . . . . . . . . . . . . . . . Chy12g00013 . . . . . Bpe02g00962 . . . Sed01g2202 . . Cma13g00567 Cma18g00452 Car13g00449 Car18g00423 . Cpe20g00493 Bhi08g02111 Tan05g2567 Cmetu12g0178 Lac10g1014 Hepe07g1806 . . Cla03g00672 Cam03g0721 Cec03g0697 Cco03g0733 Clacu03g0719 Cmu03g1310 Cre03g1005 Lsi02g00857 Csa01g02269 . Cme12g01234
       

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
OG0009148 1 1 1 2 1 1 2 1 1 1 1 1 2 1 1 1 1 0 2 1 1 1 1 1 1 1 1 2 1 1 34
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cla03g00672 Cla_Chr03 FPKM 15.843212 15.249724 10.272722 11.999946 16.621471 17.69352 15.143725 3.137942 2.80732 3.769643