Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cla08g00913 ATGCAAAGCTTCAATCCCACTTTGAGCAATCCGGGTCCTTCCTTTGACTACTCCACTTCAATCCATCTCACCACCAACCCAACTGCCGCACCACCCCCCGCCACCGCCGCCACCACCGCATACCTCCACCAAATCCAAAAATCCAACCTCATCCAACCCTTTGGCTGCCTTTTAGCCCTCCACCCAACCACCCTCAAACTCATCGCCTTCACCCAAAATGCCCCAGAAATGCTCACCACCGTTGCCCACACCGTCCCCGATGGCGACAACCACCCCCTCCTCGCCATCGGCACGGACCTCCGAGCCATCTTCACCAACCCCACTGCCACTGCCCTCCTCAAGGCCCTCGCCTTCCACGATGTCACCCTCCTCAACCCCATTCTAGTCCACTCCAAGTCCTCAGGGAAGCCCGTCTATGCCATTATCCACCGCGTCACCGGTAGCCTTATCATCGACTTCGAGCCCCTCAAACCCGACCAAGTCCCCGTCACCGCTGCAGGAGCTCTCCAATCCTATAAGCTCGCTGCCAAAGCCATCACTCGTCTCCAGGCTCTCTCTAGTGGGAGCCTGGCTAGACTCTGTGACACCATGGTTCAAGAAGTCTTTGAGTTGACAGGTTACGATAGAATTATGGCATATAGGTTTCATGACGATGATCATGGCGAGGTATTTTCCGAGGTTACAAAGCCTGGCCTTGAACCTTATCTAGGTTTGCATTATCCAGCCACTGACATTCCTCAGGCTGCTAGGTTTTTATTCATGAAGAATAAAGTTAGAATGATTGTGGATTGTAGAGCCAAACATGTGAAAGTCATTCAAGATCACAATCTTGATTTTGATTTGACTTTGTGTGGGTCCACTTTAAGAGCTCCTCATAGTTGCCATTTGCAATATATGGAGAATATGGACTCTATTGCCTCTTTGGTTATGTCCATTGTAGTGAATGAAGAGGAGGATGAAGAGAATTTCGATCAAAATAACAACAATAATGATGCTTCTTTGAAAAAACATAAGAGGAAAAGATTGTGGGGTTTGGTAGTTTGTCATAACACAACTCCTAGATTTGTCCCTTTTCCACTTAGATATGCTTGTGAGTTTCTAGCTCAAGTTTTTGCCATTCATGTCAACAAGGAATTGGAGTTAGAGAATCAAATTTTGGAGAAAAATATCTTGAGAACTCAAACACTTTTATGTGACATGTTAATGCGTGATGCTCCTTTAGGAATTGTGTCAAGGACTCCTAATATAATGGATCTTGTCAAATCTGATGGAGCTGCATTATTGTACAATAACAAGGTATGGAGATTAGGGATAACCCCTACTGATTTCCATCTTCAGGACATTGCTTCATGGATTTTTGAGTATCATATGGATTCCACTGGTTTGAGTACTGATAGCTTGTATGATGCCGGGTACCCGGGCGCACTTGCGCTAGGCGATGCAGTGTGCGGGATGGCTGTTGTGAGGATATCTTCCGAGGACATGATTTTCTGGTTTCGATCGCACACCGCATCGGAGATTCTGTGGGGCGGGGCAAAGCATGAGCCTGGTGACAAGGATGATGGAAGGAAAATGCATCCAAGATCATCTTTTAAGGCTTTTCTTGAAGTGGTAAAGACAAGGAGTTTGCCTTGGAAGGACTTTGAAATGGATGCAATTCATTCTTTGCAACTTATTTTAAGAAATACTTTTAAAGATACAGATCATATGAGTGAGATTCATAGAAAATCAATACAAACCACAATTAGTGATCTCAAGATTATTGATGGGAGGCAAGAATTGGAATCAGTAACAAGTGAGATGGTTAGGTTGATTGAAACAGCCACAGTTCCAATTTTGGCTGTTGATGTAGATGGGCTTGTGAATGGGTGGAACTCAAAAATTGCTGAATTGACTGGACTCTCTGTTCACAAAGCCATTGGCAAGCATTTGCTCACATTAGTGGAGGATTCTTCTGTTGAAATTGTCAAGAAGATGTTGTTCTTGGCATTGCAAGGTCAAGAGGAAAAAGACGTTCAATTCGAGATAAAAACACACAACTCCGACATCGAGTCGGGCTCCATAAGTCTAATAGTAAATGCTTGTGCAAGCAAAGACTTGGATGAAAATGTGGTGGGAGTGTGCTTCGTAGCACAAGACATAACATGTCAAAAGATGGTAATGGACAAGTTCACAAAACTACAAGGTGATTACAAAGCCATAGTACAAAACCCTAACCCACTAATCCCTCCAATATTTGGGTTAGATGAATTTGGTTGGTGCTCAGAATGGAACTTAGCAATGACAAAGCTAAGTGGATGGTCTCGTGAAGCAGTTCTCAACAAAATGCTTTTAGGAGAAGTTTTTGGAAACTCTTCATCATCTTGTTGCCATCTCAAGAATCAAGAGGCTTTTGTGAATCTTGGGATTGTGTTGAACAATGCAATGAATGGGCAAGATCCTGAAAAGAATATCCCATTTGGTTTCTATGCAAGAAATGGGATTTTTGTAGAATGTCTTCTATGTGTTAATAAGATATTGGATAAAGATGGTGGAGTTATTGGGGTTTTTTGCTTCTTGCAACTTGCTAGCCAAGAGCTTCAACAAGCATTGAGTATTCAAAAATTATGTGAGAGAACAGCTTTGAACAGATTGAAGGCATTGGGATATATGAAGAGGCAGATTGAAAATCCTCTTTGTGGGATCATTTTTTCAAGCAAAATGTTGCAGCAAACTCAGTTGGGATTGGAACAGAAGCAACTTTTGCATAATAGTGTCAATTGTCAAAGGCAGATCTCCAAGGTTCTTGATGAATCTCATGATCTTGATCGGATTATTCAAGGTTTCATTGATTTAGAAATGGTTGAGTTTTCATTGTATGAAGTATTGGTGGTATCAATTAGTCAAGTGATGATGAAGAGCAAAGGGAAAGGTATCCAAATAGCAAATGAGATTGCAGAAGAGATGATGTCTGAGACTTTATATGGAGACAATTTGAGACTTCAACAAGTGATGGCTGATTTCTTGTTGACATCAGTTAATTATGCACCAACAGGAGCCCAACTTATGGTTTCAACAAATTTGACTAAACATCATTTACGAAACTCACTACATCTTGTGCATCTTGAATTCAGGATAAGATATGTTGGAGGAGGAATACCAGAATCATTGTTGAATGAGATGTTTGGGAATGATTATGAGGATGCAACTGAAGAAGGTTTCAGCTTGTTTATAAGTAGAAAGCTAGTGAAGATGATGAATGGAGATGTGAGACATGTAAGGGAAGCAGACAAGTCAAGCTTCATCATTACTCTTGAGTTTGCTGCCTGCTCATAA 3315 42.11 MQSFNPTLSNPGPSFDYSTSIHLTTNPTAAPPPATAATTAYLHQIQKSNLIQPFGCLLALHPTTLKLIAFTQNAPEMLTTVAHTVPDGDNHPLLAIGTDLRAIFTNPTATALLKALAFHDVTLLNPILVHSKSSGKPVYAIIHRVTGSLIIDFEPLKPDQVPVTAAGALQSYKLAAKAITRLQALSSGSLARLCDTMVQEVFELTGYDRIMAYRFHDDDHGEVFSEVTKPGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRAKHVKVIQDHNLDFDLTLCGSTLRAPHSCHLQYMENMDSIASLVMSIVVNEEEDEENFDQNNNNNDASLKKHKRKRLWGLVVCHNTTPRFVPFPLRYACEFLAQVFAIHVNKELELENQILEKNILRTQTLLCDMLMRDAPLGIVSRTPNIMDLVKSDGAALLYNNKVWRLGITPTDFHLQDIASWIFEYHMDSTGLSTDSLYDAGYPGALALGDAVCGMAVVRISSEDMIFWFRSHTASEILWGGAKHEPGDKDDGRKMHPRSSFKAFLEVVKTRSLPWKDFEMDAIHSLQLILRNTFKDTDHMSEIHRKSIQTTISDLKIIDGRQELESVTSEMVRLIETATVPILAVDVDGLVNGWNSKIAELTGLSVHKAIGKHLLTLVEDSSVEIVKKMLFLALQGQEEKDVQFEIKTHNSDIESGSISLIVNACASKDLDENVVGVCFVAQDITCQKMVMDKFTKLQGDYKAIVQNPNPLIPPIFGLDEFGWCSEWNLAMTKLSGWSREAVLNKMLLGEVFGNSSSSCCHLKNQEAFVNLGIVLNNAMNGQDPEKNIPFGFYARNGIFVECLLCVNKILDKDGGVIGVFCFLQLASQELQQALSIQKLCERTALNRLKALGYMKRQIENPLCGIIFSSKMLQQTQLGLEQKQLLHNSVNCQRQISKVLDESHDLDRIIQGFIDLEMVEFSLYEVLVVSISQVMMKSKGKGIQIANEIAEEMMSETLYGDNLRLQQVMADFLLTSVNYAPTGAQLMVSTNLTKHHLRNSLHLVHLEFRIRYVGGGIPESLLNEMFGNDYEDATEEGFSLFISRKLVKMMNGDVRHVREADKSSFIITLEFAACS 1104
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
8 21638114 21644848 + ClCG08G009080.1 Cla08g00913 278568

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cla08g00913 1104 PIRSF Phytochrome_conventional 2 1104 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cla08g00913 1104 SUPERFAMILY GAF domain-like 169 376 - -
Cla08g00913 1104 SUPERFAMILY PYP-like sensor domain (PAS domain) 744 852 IPR035965 -
Cla08g00913 1104 ProSiteProfiles Histidine kinase domain profile. 883 1102 IPR005467 -
Cla08g00913 1104 SUPERFAMILY GAF domain-like 387 564 - -
Cla08g00913 1104 CDD PAS 741 854 IPR000014 -
Cla08g00913 1104 SUPERFAMILY PYP-like sensor domain (PAS domain) 603 710 IPR035965 -
Cla08g00913 1104 Gene3D PAS domain 592 728 - -
Cla08g00913 1104 ProSitePatterns Phytochrome chromophore attachment site signature. 289 298 IPR013516 -
Cla08g00913 1104 Pfam Phytochrome region 392 566 IPR013515 GO:0006355|GO:0009584
Cla08g00913 1104 TIGRFAM sensory_box: PAS domain S-box protein 604 720 IPR000014 -
Cla08g00913 1104 PRINTS Phytochrome signature 204 223 IPR001294 GO:0006355|GO:0009584
Cla08g00913 1104 PRINTS Phytochrome signature 104 126 IPR001294 GO:0006355|GO:0009584
Cla08g00913 1104 PRINTS Phytochrome signature 600 616 IPR001294 GO:0006355|GO:0009584
Cla08g00913 1104 PRINTS Phytochrome signature 494 513 IPR001294 GO:0006355|GO:0009584
Cla08g00913 1104 PRINTS Phytochrome signature 527 545 IPR001294 GO:0006355|GO:0009584
Cla08g00913 1104 PRINTS Phytochrome signature 712 732 IPR001294 GO:0006355|GO:0009584
Cla08g00913 1104 PRINTS Phytochrome signature 409 429 IPR001294 GO:0006355|GO:0009584
Cla08g00913 1104 PRINTS Phytochrome signature 619 634 IPR001294 GO:0006355|GO:0009584
Cla08g00913 1104 PRINTS Phytochrome signature 692 709 IPR001294 GO:0006355|GO:0009584
Cla08g00913 1104 PRINTS Phytochrome signature 289 310 IPR001294 GO:0006355|GO:0009584
Cla08g00913 1104 Pfam GAF domain 190 379 IPR003018 GO:0005515
Cla08g00913 1104 Pfam PAS fold 40 155 IPR013654 GO:0006355
Cla08g00913 1104 Gene3D - 920 1096 IPR036890 -
Cla08g00913 1104 PANTHER TWO-COMPONENT HISTIDINE KINASE 9 1103 - -
Cla08g00913 1104 SMART HKATPase_4 989 1102 IPR003594 -
Cla08g00913 1104 PANTHER PHYTOCHROME A 9 1103 - -
Cla08g00913 1104 Pfam PAS fold 730 854 IPR013767 GO:0006355
Cla08g00913 1104 Pfam PAS fold 600 714 IPR013767 GO:0006355
Cla08g00913 1104 Gene3D PAS domain 44 292 - -
Cla08g00913 1104 SMART pas_2 729 799 IPR000014 -
Cla08g00913 1104 SMART pas_2 599 665 IPR000014 -
Cla08g00913 1104 Gene3D - 384 557 IPR043150 -
Cla08g00913 1104 Gene3D - 170 540 IPR029016 -
Cla08g00913 1104 SUPERFAMILY PYP-like sensor domain (PAS domain) 45 159 IPR035965 -
Cla08g00913 1104 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 933 1098 IPR036890 -
Cla08g00913 1104 ProSiteProfiles PAS repeat profile. 597 667 IPR000014 -
Cla08g00913 1104 ProSiteProfiles PAS repeat profile. 730 782 IPR000014 -
Cla08g00913 1104 Coils Coil 376 396 - -
Cla08g00913 1104 SMART gaf_1 189 389 IPR003018 GO:0005515
Cla08g00913 1104 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 189 369 IPR016132 -
Cla08g00913 1104 CDD PAS 608 714 IPR000014 -
Cla08g00913 1104 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 989 1099 IPR003594 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cla08g00913 K12120 PHYA; phytochrome A - csv:101219585 1933.3
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cla08g00913 Cla-Chr8:21638114 Cla11g00097 Cla-Chr11:1275702 4.65E-08 dispersed
Cla08g00910 Cla-Chr8:21593105 Cla08g00913 Cla-Chr8:21638114 0 proximal
       

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
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
Cla08g00913 Cla_Chr08 FPKM 14.525401 15.921932 44.619312 46.160328 39.026871 43.831234 38.666519 27.535542 26.459839 27.01055