Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi08g00755 ATGTCTTCCTCTAGACCTAGCCAGTCTTCTAGCAACTCTGCACGGTCAAGACATAGCACCAGAATTATTGCTCAAACATCTGTTGATGCGAAGCTGCAAGCTGATTTTGAGGAATCTGGGAATTCATTCGACTACTCAAGTTCAGTGCGTGTCTCTAGTGATGTTAGTGGAGATCAACAACCTAGGTCAGACAAAGTTACAACAGCTTATCTCCATCATATACAGAAAGGTAAGCTTATCCAACCATTTGGTTGCTTATTGGCCTTAGATGACAAAACATTCAAGGTTATTGCATATAGTGAAAATGCCCCTGAAATGTTGACCATGGTCAGTCATGCTGTCCCAAGCATGGGAGATTACCCTGTTCTTGGCATAGGGACAGATGTAAGGACTATTTTCACTGCACCTAGTGCTTCTGCACTGTTGAAGGCCTTGGGCTTTGGGGAGGTTACACTTCTTAATCCTATCCTAGTGCATTGCAAGACTTCTGGAAAACCCTTCTATGCAATTGTGCATCGTGTTACTGGAAGCTTAATCATTGACTTTGAGCCTGTGAAGCCTTATGAAGTTCCAGTGACAGCAGCTGGAGCCCTGCAATCATATAAACTTGCCGCCAAAGCAATTACTAGATTGCAGTCTTTGCCTAGTGGGTGCATGGCTAGGCTTTGTGACACAATGGTTCAAGAAGTTTTTGAACTAACAGGTTATGATAGAGTCATGGCTTATAAATTCCATGATGATGATCACGGGGAAGTGATCTCTGAAGTCACAAAGCCTGGGCTTGAGCCATATCTTGGTTTGCATTATCCAGCCACCGACATTCCTCAAGCCGCACGCTTTTTGTTCATGAAAAATAAGGTCCGCATGATTGTTGATTGTCGTGCAAAACATTTAAAAGTACTCCAAGATGAGAAATTACAGTTTGATCTAACTTTATGCGGTTCAACATTAAGGGCTCCACACAGTTGCCACATAAAGTATATGGAAAACATGAATTCTATAGCCTCTTTGGTTATGGCAGTTGTGGTTAATGAAGGGGATGAAGATGGTGAGGGCCCTGCTTTGCAGCAACAAAAGAGAAAGAGATTATGGGGGTTAGTAGTATGTCATAATACAAGTCCCAGATTTGTTCCTTTTCCTCTTAGGTATGCTTGTGAGTTTCTAGCTCAAGTATTTGCTATTCACGTGAACAAGGAATTGGAGTTGGAAAATCAAATTATAGAGAAAAATATTCTACGTACACAGACACTCTTGTGCGACATGCTAATGCGTGATGCTCCTTTAGGTATTGTGTCAAGGAGTCCTAACATAATGGATCTTGTCAAATCTGATGGGGCTGCCCTATTATATAAGAACAAAATTTGGCGACTGGGAATGACACCTAGCGACTTCCAGTTGCGGGACATTGCCTCGTGGCTTGCCGAATATCATATGGATTCGACAGGGTTGAGTACTGACAGCTTGTATGATGCAGGATATCCTGGAGCTCTTGCTTTGGGTGATGAAGTGTGTGGGATGGCTGCTGTGAGGATAACTACTAATGATATGATTTTTTGGTTTCGATCTCACACTGCTTCAGAGATACGGTGGGGTGGAGCAAAGCATGAGCATGGTGAAAAGGACGATGGCAGAAAAATGCATCCAAGATCATCTTTCAAGGCTTTCCTTGAAGTAGTCAAAACAAGAAGTTTGGCTTGGAAGGACTATGAAATGGATGCAATCCACTCTTTACAACTGATCCTTAGAAATACTTTTAAAGATACAGATACAGCTGAAATAAATCGAAAATCAATTCAAATGACACTTGGTGACCTAAAAATTGAAGGGAGGCAAGAATTGGAATCAGTAACAAGTGAGATGGTCAGGTTAATTGAGACAGCTACTGTGCCGATTTTAGCAGTTGATGTAGATGGGTCAATTAATGGGTGGAATACAAAAATTGCTGAATTGACTGGACTCCCTGTGGATAAAGCTATTGGCAAGCATTTGCTTACGCTAGTGGAAGATACTTCTGTAGAAGTTGTCAAGAAGATGTTATCTTTGGCATTGCAAGGACAAGAAGAACAAAACGTTCAATTTGAAATCAAGACACATGGTTCTCATATTGAGGTTGGCTCCATCAGGCTTGTTGTAAATGCTTGTGCAAGTAGGGACTTGCGTGAAAATGTTGTGGGGGTGTGTTTTGTAGCACAAGATATCACTGGTCAGAAGATGGTTATGGACAAGTTCACTCGATTAGAAGGTGATTACAGAGCTATTGTACAAAATCCCAATCCATTAATCCCTCCTATATTTGGTTCAGATGAATTTGGATGGTGCTCAGAGTGGAATCCTGCAATGACAAAATTAACTGGGTGGTCACGTGAAGAAGTAATCGATAAGATGCTTTTGGGAGAGGTTTTTGGCGCTCACAAATCATGTTGTCGTTTAAAGAATCAAGAAGCTTTTGTTAATCTTGGGGTTGTTTTGAACAATGCCATGAGTGGTCAAGATCCTGAAAAGGTTTCTTTTGGCTTCTTTGCTCGGAATGGGATGTACGTGGAATGTCTTCTATGTGTCAATAAGATCTTGGATAAGGATGGGGTGGTTACAGGGGTTTTTTGCTTTTTGCAGCTTGCTAGTCATGAGTTGCAACAAGCACTAAATATCCAACGATTATGTGAGCAGACTGCATTGAAGAGATTGAGAGCATTGGGATACATAAAAAGACAGATACAAAATCCTCTATCTGGGATAATCTTTTCAAGAAGATTATTGGAACGCACCGTGTTGGGAATAGAACAAAAGGAAATTCTGCAAACTAGCATACACTGTCAAAAGCAGATCTCCAAGGTTCTCGAAGAGTCTGACCTTGATAAAATTATTGATGGGTTTATTGATTTGGAAATGGTCGAGTTTACATTGCATGAAGTATTGACGGTATCAATCAGTCAAGTGATGATAAAGAGCAAAGGAAAGGGTATCCAGATAGTTAATGAGACTGTAGAAGAGGCCATGTCCGAGACCTTATATGGTGATAGTTTGAGGCTTCAACAAGTCTTGGCCGACTTTCTATTGCTATCAGTTAGTTATGCTCCAGCAGGAGGCCAGCTAACAATTTCAACCAACTTGACCAAGGATCAATTAGGAAAGTCGGTTCATCTGGTGCATTTAGAGTTCAGGATAACATATGCTGGAGGCGGTATACCTGAATCGTTGCTCAACGAGATGTTTGGTAGTGAGGAGGATGCTTCTGAGGAGGGTTTTAGTCTACTCATCAGTAGAAAACTAGTGAAGCTGATGAATGGAGATGTAAGATATATGAGGGAAGCAGGTAAGTCAAGCTTCATCATAACTGTTGAGCTTGCTGCTGCACACAAGGCAAGTACGTAG 3372 41.34 MSSSRPSQSSSNSARSRHSTRIIAQTSVDAKLQADFEESGNSFDYSSSVRVSSDVSGDQQPRSDKVTTAYLHHIQKGKLIQPFGCLLALDDKTFKVIAYSENAPEMLTMVSHAVPSMGDYPVLGIGTDVRTIFTAPSASALLKALGFGEVTLLNPILVHCKTSGKPFYAIVHRVTGSLIIDFEPVKPYEVPVTAAGALQSYKLAAKAITRLQSLPSGCMARLCDTMVQEVFELTGYDRVMAYKFHDDDHGEVISEVTKPGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRAKHLKVLQDEKLQFDLTLCGSTLRAPHSCHIKYMENMNSIASLVMAVVVNEGDEDGEGPALQQQKRKRLWGLVVCHNTSPRFVPFPLRYACEFLAQVFAIHVNKELELENQIIEKNILRTQTLLCDMLMRDAPLGIVSRSPNIMDLVKSDGAALLYKNKIWRLGMTPSDFQLRDIASWLAEYHMDSTGLSTDSLYDAGYPGALALGDEVCGMAAVRITTNDMIFWFRSHTASEIRWGGAKHEHGEKDDGRKMHPRSSFKAFLEVVKTRSLAWKDYEMDAIHSLQLILRNTFKDTDTAEINRKSIQMTLGDLKIEGRQELESVTSEMVRLIETATVPILAVDVDGSINGWNTKIAELTGLPVDKAIGKHLLTLVEDTSVEVVKKMLSLALQGQEEQNVQFEIKTHGSHIEVGSIRLVVNACASRDLRENVVGVCFVAQDITGQKMVMDKFTRLEGDYRAIVQNPNPLIPPIFGSDEFGWCSEWNPAMTKLTGWSREEVIDKMLLGEVFGAHKSCCRLKNQEAFVNLGVVLNNAMSGQDPEKVSFGFFARNGMYVECLLCVNKILDKDGVVTGVFCFLQLASHELQQALNIQRLCEQTALKRLRALGYIKRQIQNPLSGIIFSRRLLERTVLGIEQKEILQTSIHCQKQISKVLEESDLDKIIDGFIDLEMVEFTLHEVLTVSISQVMIKSKGKGIQIVNETVEEAMSETLYGDSLRLQQVLADFLLLSVSYAPAGGQLTISTNLTKDQLGKSVHLVHLEFRITYAGGGIPESLLNEMFGSEEDASEEGFSLLISRKLVKLMNGDVRYMREAGKSSFIITVELAAAHKAST 1123
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
8 15879561 15886843 - Lsi08G007550.1 Lsi08g00755 668681

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi08g00755 1123 PRINTS Phytochrome signature 133 155 IPR001294 GO:0006355|GO:0009584
Lsi08g00755 1123 PRINTS Phytochrome signature 731 751 IPR001294 GO:0006355|GO:0009584
Lsi08g00755 1123 PRINTS Phytochrome signature 515 534 IPR001294 GO:0006355|GO:0009584
Lsi08g00755 1123 PRINTS Phytochrome signature 548 566 IPR001294 GO:0006355|GO:0009584
Lsi08g00755 1123 PRINTS Phytochrome signature 619 635 IPR001294 GO:0006355|GO:0009584
Lsi08g00755 1123 PRINTS Phytochrome signature 318 339 IPR001294 GO:0006355|GO:0009584
Lsi08g00755 1123 PRINTS Phytochrome signature 711 728 IPR001294 GO:0006355|GO:0009584
Lsi08g00755 1123 PRINTS Phytochrome signature 233 252 IPR001294 GO:0006355|GO:0009584
Lsi08g00755 1123 PRINTS Phytochrome signature 638 653 IPR001294 GO:0006355|GO:0009584
Lsi08g00755 1123 PRINTS Phytochrome signature 430 450 IPR001294 GO:0006355|GO:0009584
Lsi08g00755 1123 PANTHER TWO-COMPONENT HISTIDINE KINASE 1 1119 - -
Lsi08g00755 1123 MobiDBLite consensus disorder prediction 39 64 - -
Lsi08g00755 1123 ProSiteProfiles PAS repeat profile. 616 686 IPR000014 -
Lsi08g00755 1123 Pfam PAS fold 619 733 IPR013767 GO:0006355
Lsi08g00755 1123 Pfam PAS fold 749 871 IPR013767 GO:0006355
Lsi08g00755 1123 PIRSF Phytochrome_conventional 1 1123 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Lsi08g00755 1123 Gene3D PAS domain 612 748 - -
Lsi08g00755 1123 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 218 390 IPR016132 -
Lsi08g00755 1123 Gene3D PAS domain 74 321 - -
Lsi08g00755 1123 CDD HATPase_Phy-like 1004 1115 IPR044767 -
Lsi08g00755 1123 Pfam GAF domain 221 400 IPR003018 GO:0005515
Lsi08g00755 1123 SMART HKATPase_4 1005 1117 IPR003594 -
Lsi08g00755 1123 SUPERFAMILY GAF domain-like 408 585 - -
Lsi08g00755 1123 SUPERFAMILY GAF domain-like 198 397 - -
Lsi08g00755 1123 Gene3D - 405 578 IPR043150 -
Lsi08g00755 1123 SMART pas_2 618 684 IPR000014 -
Lsi08g00755 1123 SMART pas_2 748 817 IPR000014 -
Lsi08g00755 1123 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 951 1112 IPR036890 -
Lsi08g00755 1123 SUPERFAMILY PYP-like sensor domain (PAS domain) 622 729 IPR035965 -
Lsi08g00755 1123 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1005 1115 IPR003594 -
Lsi08g00755 1123 SUPERFAMILY PYP-like sensor domain (PAS domain) 74 186 IPR035965 -
Lsi08g00755 1123 Pfam Phytochrome region 413 587 IPR013515 GO:0006355|GO:0009584
Lsi08g00755 1123 SMART gaf_1 218 410 IPR003018 GO:0005515
Lsi08g00755 1123 MobiDBLite consensus disorder prediction 1 24 - -
Lsi08g00755 1123 Pfam PAS fold 69 185 IPR013654 GO:0006355
Lsi08g00755 1123 ProSiteProfiles Histidine kinase domain profile. 900 1119 IPR005467 -
Lsi08g00755 1123 TIGRFAM sensory_box: PAS domain S-box protein 623 739 IPR000014 -
Lsi08g00755 1123 Coils Coil 397 417 - -
Lsi08g00755 1123 CDD PAS 627 733 IPR000014 -
Lsi08g00755 1123 CDD PAS 760 871 IPR000014 -
Lsi08g00755 1123 PANTHER PHYTOCHROME A 1 1119 - -
Lsi08g00755 1123 Gene3D - 199 561 IPR029016 -
Lsi08g00755 1123 Gene3D - 956 1121 IPR036890 -
Lsi08g00755 1123 Gene3D PAS domain 763 877 - -
Lsi08g00755 1123 SUPERFAMILY PYP-like sensor domain (PAS domain) 763 869 IPR035965 -
Lsi08g00755 1123 ProSitePatterns Phytochrome chromophore attachment site signature. 318 327 IPR013516 -
Lsi08g00755 1123 SMART HisKA_10 893 957 IPR003661 GO:0000155|GO:0007165
Lsi08g00755 1123 ProSiteProfiles PAS repeat profile. 746 801 IPR000014 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi08g00755 K12120 PHYA; phytochrome A - csv:101208491 2142.47
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi05g01420 Lsi-Chr5:22155641 Lsi08g00755 Lsi-Chr8:15879561 0 dispersed
Lsi08g00755 Lsi-Chr8:15879561 Lsi11g01345 Lsi-Chr11:22083090 0 dispersed
Lsi08g00755 Lsi-Chr8:15879561 Lsi08g00758 Lsi-Chr8:15922089 0 proximal
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi07g01094 . 30 1319 Histidine Kinase Gene Family AT2G17820 59.8 0.0e+00 1375.9
Lsi09g00708 CCT 175 1195 Histidine Kinase Gene Family AT2G01830 68.3 0.0e+00 1301.2
Lsi11g00010 . 18 923 Histidine Kinase Gene Family AT2G01830 65.2 0.0e+00 1187.9
Lsi09g01720 . 58 1018 Histidine Kinase Gene Family AT2G01830 53.0 6.3e-272 934.1
Lsi10g00055 . 304 1282 Histidine Kinase Gene Family AT2G01830 51.4 2.7e-267 918.7
Lsi04g01364 . 1 992 Histidine Kinase Gene Family AT5G10720 57.6 7.9e-295 1010.0
Lsi08g00755 . 1 1120 Histidine Kinase Gene Family AT1G09570 79.9 0.0e+00 1830.5
Lsi11g01345 . 18 1112 Histidine Kinase Gene Family AT1G09570 55.1 0.0e+00 1214.1
Lsi05g01420 . 34 1120 Histidine Kinase Gene Family AT1G09570 54.8 0.0e+00 1199.5
Lsi08g00758 . 3 377 Histidine Kinase Gene Family AT1G09570 62.6 1.3e-142 504.6
Lsi05g01420 . 13 1061 Histidine Kinase Gene Family AT2G18790 79.2 0.0e+00 1676.8
Lsi02g00857 . 31 1051 Histidine Kinase Gene Family AT2G18790 60.4 0.0e+00 1238.0
Lsi08g00755 . 9 1054 Histidine Kinase Gene Family AT2G18790 52.9 0.0e+00 1087.8
Lsi11g01345 . 26 1069 Histidine Kinase Gene Family AT2G18790 52.5 0.0e+00 1079.3
Lsi11g01345 . 12 1116 Histidine Kinase Gene Family AT5G35840 61.5 0.0e+00 1363.6
Lsi05g01420 . 21 1122 Histidine Kinase Gene Family AT5G35840 53.0 0.0e+00 1153.7
Lsi08g00755 . 9 1114 Histidine Kinase Gene Family AT5G35840 51.7 0.0e+00 1115.5
Lsi05g01420 . 3 1122 Histidine Kinase Gene Family AT4G16250 75.9 0.0e+00 1716.4
Lsi02g00857 . 32 1113 Histidine Kinase Gene Family AT4G16250 58.6 0.0e+00 1281.9
Lsi08g00755 . 8 1115 Histidine Kinase Gene Family AT4G16250 52.6 0.0e+00 1132.9
Lsi11g01345 . 26 1115 Histidine Kinase Gene Family AT4G16250 52.6 0.0e+00 1121.3
Lsi02g00857 . 15 1129 Histidine Kinase Gene Family AT4G18130 62.6 0.0e+00 1372.5
Lsi05g01420 . 38 1120 Histidine Kinase Gene Family AT4G18130 59.0 0.0e+00 1271.9
       

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
Lsi08g00755 Lsi_Chr08 FPKM 44.289215 45.823833 54.030472 58.486694 37.325287 44.297916 32.255814 83.870773 91.303047 77.713196