Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi02g00857 ATGGACAAGAATCGGAGTGGAGAAAGACGAATGGCCGCGTTTTCTTCTTTGGCGGATAGTAATTCTAGGGCTCGTCCTAGCGCCACCACTAGCACCGACAACAGACTTGCTGCACTTGTGCAATACAATGCCGATGCTGGACTTTTGAACAAGTTTGAGCTCTCGGATGCATCTGGTGAGTCTTTTAACTATTCCAGATCAGTTCTTGAAGCTCCTATATCTGTACCCGAAGAACAAATTACTGCCTATTTGTCTAAGATTCAGAGGGGTGGGTTCGTTCAACCCTTTGGTTGTTTGCTTGCCATTGAAGAATCTAGTTTTAAGATTCTTAGCTTTAGTGAGAATTGTTTTGAATTACTGGGGCTTAATGATCAATTTGGATCGGCACAGGGAAAGGGTCTGATTGGGGTTGATATGAGAGCTCTGTTTACGCCTTCCTCCGGTGCTTCTTTGGCCAAAGCGGCTTCATCCAGGGAGATTTCACTGTTGAACCCTGTTTGGGTCTATTCTAGGACTACCCAGAAGCCATTCTATGCTATATTGCACAGAATTGATGTGGGGATTGTAGTTGATTTGGAGCCTGCACGGTCTGTTGATCCTGCATTGTCGCTTGCAGGTGCTGTGCAGTCACAGAAGCTTGCGGTTAGAGCGATTTCCAGGTTGCAGGCTCTACCTAGTGGTGATATTGGTGTTCTATGTGATACAGTTGTTGAAGATGTTCAAAAGCTTACAGGGTATGATAGAGTGATGGTGTATAAGTTCCATGATGACGAACATGGTGAAGTAGTGTCAGAAATCAGAAGGTCAGACTTAGAGCCATACCTCGGTTTGCATTATCCTGCCATTGATATACCTCAAGCGGCTCGTTTTTTGTTCAAGCAGAACCGTGTCAGGATGATTTGTGACTGCCACACAAAGCCTGTGCAGGTCATTCAAAGCGATGAACTAAAGCAGCCTCTTTGTTTGGTGAATTCAACACTAAGAGCACCACATAGCTGTCATTTGCAATACATGGCAAATATGGGTTCCTTAGCTTCATTAGCGATGGCAGTAATCATGAACAGTGATGACTCACCAACAAGGCTATGGGGTCTGGTAGTGTGCCACCATACGTCTCCTCGATATGTCCCTTTCCCACTTCGTTATGCCTGTGAGTTTCTCATGCAGGCGTTCGGGCTGCAGCTTTACATGGAGCTTCAATTGGCATTACAATTAACAGAGAAAAAGATCCTCAAGACACAAACTTTACTTTGTGACATGCTTCTCCGAGGCTCCCCATATGCATTGCTGAGTCGGTCTCCTAGTATAATGGATCTCGTGAAGTGCGATGGTGCTGCACTGTACTATAACGGGGCATGTTGTTTATTAGGTGTAACTCCAACCGAAGCACAAGTCAAAGATCTTGCAGAGTGGGTGCTCAATAATCATGGGGATTCTACAGGGCTGAGCACGGATAGTTTGGCTGATGCTGGCTACCCTGAAGCTGCTTCACTAGGTGATGCGGTCTGTGGTATGGCAGCTGCAAGATTCACTTCAAAGGATTTCTTATTCTGGTTCAGGTCCCATGTTGCAAAGGAAATTCAGTGGGGAGGAGCCAAGCATCATCCAGATGATAAGGATGATTGTGGAAGAATGCACCCGAGATCATCATTTAAAGCATTTCTTGAAGTTGCAAAGAGTAGAAGTTTGTCTTGGGAAGTTCAAGAAATAAATGCCATTCACTCATTGCAGCTTATAATGAGGGAGTCTTTTCCAAACACGAGGGACAGTGATTCAAAGGCGGAAAATTATGTCCAGTTGAGTGATGTTGAGATCCAGGATATCAATGAACTCAGTTCAGTAGCTTGTGAAATGGTTAGGTTGATCGAAACAGCAACTGTTCCAATTTTTGGGGTTGACTCAACGGGTTTGATCAATGGATGGAATGCTAAAATTTCTGAACTTGTGGGATTACAAACTGGAGAAGCTTTGGGGAAATCTCTGGTTAATGAAATTGTTCATGAAGATTCATGTGGAACTGTGGAAGTTTTGCTTTCCTCTGCTCTTCAAGGTAAGGAAGACAAAAATGTGGAGTTAAAACTGAGAAGTTTTGGAACTGATAAAGAAAAGTCTAACGTGTATATTGTAGTTAATGCTTGCACAAGTAGAGATTACACAAACAAAGTTGTTGGAGTTTGCTTTGTTGGACAAGATCTTACATCCGAGAAAGGTGTGATGGATAAATTTATCCGTCTGCAGGGAGATTATAAGACTATTATTGAAAGTCTGAGTCCATTAATTCCTCCAATGTTTGTTTCGGACGAGAATGGTTACTGCTGTGAATGGACTGCAGCCATGGAAAAACTTACTGGTTGGAGGAAAAATGAAGTTATAGGAAAAATGCTAGCTGGGGAGATCTTTGGGAATTTTTGTAGGTTGAAAGGTTTAGCTACCCTCACTAGGTTTATGATTCTATTATATCAAGGTATTAGTGGTGAAGTAACCGAAAAGTTTCCATTAGGATTTTTCAACAAGGATGGGAATTATGTAGATGTGCTATTAACATCGAACAAGAGAACTGATGCTGAAGGAAATGCCATTGGTTGTATCTGCTTCCTGCAAATTGTTCAACCCAATTTACATGGGGTCTTAGAAGGACTTGGGACGGGTGATAGAGAGGGCATTTTGCAGCATAAGGAGTTGAGCTTCTTAAAGCATGAGATGAAAAATCCTTTAAATGGCCTCAGATTTACTCATGAACTCCTTGTAAATTCTGGCATTACGGAAAACCAGAAACTTTTCCTTGATACTAGTGATGCATGCGAGAGACAAATCATGACAATCATACAGGATATGGACTTCAGAAGTTTAGAAGGAGGCCAAGTAGAGATAAACAGAGAAGAATTTCTCCTCGGGAGTGTTCTGGATGCCATTATCTGTCAAATCATGATTGTTGTCAGAGAGAGGAACATTCAACTTTTTCATGAAATTCCAGAAGAAATCAAAACTTTAACTCTTTGTGGCGATCAAATTAAGCTTCAGATGGTTTTGTCAGATTTCTTACTTAACATAGTGCAGTACGCGCCTGTTCTGGATGGTTGGGTTGAAATCAAAATTTCTTCTGGTTTGAAGCTTATACAAGATGGAAATGAACATATTCACTTGCAGATCAGAATGTCACATCCAGGTCAAGGTTTGCCTCCTGAACTAATCCAAGATATGGTTGGAGGAGGACAACAGGGGACTTCAGAGCAAGGCCTGGCCCTAAACCTGTCACGTAGACTTCTCAATAAATTGAACGGTAATGTCCGCTATGTTAGAGAGCAAACCAAATGCTACTTCCTCATCGATCTCGAACTCAAGTTAAGGCGCTCAAGGGGGTCGATGGAAGCTACTACGAGCCAAAAGGACTTGAGTGTCTCCTATCGAGCTGATGAACACTTGTACAAATAG 3432 42.45 MDKNRSGERRMAAFSSLADSNSRARPSATTSTDNRLAALVQYNADAGLLNKFELSDASGESFNYSRSVLEAPISVPEEQITAYLSKIQRGGFVQPFGCLLAIEESSFKILSFSENCFELLGLNDQFGSAQGKGLIGVDMRALFTPSSGASLAKAASSREISLLNPVWVYSRTTQKPFYAILHRIDVGIVVDLEPARSVDPALSLAGAVQSQKLAVRAISRLQALPSGDIGVLCDTVVEDVQKLTGYDRVMVYKFHDDEHGEVVSEIRRSDLEPYLGLHYPAIDIPQAARFLFKQNRVRMICDCHTKPVQVIQSDELKQPLCLVNSTLRAPHSCHLQYMANMGSLASLAMAVIMNSDDSPTRLWGLVVCHHTSPRYVPFPLRYACEFLMQAFGLQLYMELQLALQLTEKKILKTQTLLCDMLLRGSPYALLSRSPSIMDLVKCDGAALYYNGACCLLGVTPTEAQVKDLAEWVLNNHGDSTGLSTDSLADAGYPEAASLGDAVCGMAAARFTSKDFLFWFRSHVAKEIQWGGAKHHPDDKDDCGRMHPRSSFKAFLEVAKSRSLSWEVQEINAIHSLQLIMRESFPNTRDSDSKAENYVQLSDVEIQDINELSSVACEMVRLIETATVPIFGVDSTGLINGWNAKISELVGLQTGEALGKSLVNEIVHEDSCGTVEVLLSSALQGKEDKNVELKLRSFGTDKEKSNVYIVVNACTSRDYTNKVVGVCFVGQDLTSEKGVMDKFIRLQGDYKTIIESLSPLIPPMFVSDENGYCCEWTAAMEKLTGWRKNEVIGKMLAGEIFGNFCRLKGLATLTRFMILLYQGISGEVTEKFPLGFFNKDGNYVDVLLTSNKRTDAEGNAIGCICFLQIVQPNLHGVLEGLGTGDREGILQHKELSFLKHEMKNPLNGLRFTHELLVNSGITENQKLFLDTSDACERQIMTIIQDMDFRSLEGGQVEINREEFLLGSVLDAIICQIMIVVRERNIQLFHEIPEEIKTLTLCGDQIKLQMVLSDFLLNIVQYAPVLDGWVEIKISSGLKLIQDGNEHIHLQIRMSHPGQGLPPELIQDMVGGGQQGTSEQGLALNLSRRLLNKLNGNVRYVREQTKCYFLIDLELKLRRSRGSMEATTSQKDLSVSYRADEHLYK 1143
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
2 8039562 8045713 - Lsi02G008570.1 Lsi02g00857 655599

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi02g00857 1143 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 228 389 IPR016132 -
Lsi02g00857 1143 ProSitePatterns Phytochrome chromophore attachment site signature. 328 337 IPR013516 -
Lsi02g00857 1143 TIGRFAM sensory_box: PAS domain S-box protein 621 736 IPR000014 -
Lsi02g00857 1143 SMART gaf_1 228 409 IPR003018 GO:0005515
Lsi02g00857 1143 PRINTS Phytochrome signature 143 165 IPR001294 GO:0006355|GO:0009584
Lsi02g00857 1143 PRINTS Phytochrome signature 243 262 IPR001294 GO:0006355|GO:0009584
Lsi02g00857 1143 PRINTS Phytochrome signature 617 633 IPR001294 GO:0006355|GO:0009584
Lsi02g00857 1143 PRINTS Phytochrome signature 547 565 IPR001294 GO:0006355|GO:0009584
Lsi02g00857 1143 PRINTS Phytochrome signature 328 349 IPR001294 GO:0006355|GO:0009584
Lsi02g00857 1143 PRINTS Phytochrome signature 514 533 IPR001294 GO:0006355|GO:0009584
Lsi02g00857 1143 PRINTS Phytochrome signature 710 727 IPR001294 GO:0006355|GO:0009584
Lsi02g00857 1143 PRINTS Phytochrome signature 429 449 IPR001294 GO:0006355|GO:0009584
Lsi02g00857 1143 PRINTS Phytochrome signature 730 750 IPR001294 GO:0006355|GO:0009584
Lsi02g00857 1143 PRINTS Phytochrome signature 636 651 IPR001294 GO:0006355|GO:0009584
Lsi02g00857 1143 PIRSF Phytochrome_conventional 14 1122 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Lsi02g00857 1143 ProSiteProfiles PAS repeat profile. 748 800 IPR000014 -
Lsi02g00857 1143 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1001 1111 IPR003594 -
Lsi02g00857 1143 Pfam GAF domain 228 399 IPR003018 GO:0005515
Lsi02g00857 1143 SUPERFAMILY GAF domain-like 208 395 - -
Lsi02g00857 1143 ProSiteProfiles PAC domain profile. 688 744 IPR000700 -
Lsi02g00857 1143 MobiDBLite consensus disorder prediction 15 30 - -
Lsi02g00857 1143 CDD HisKA 894 949 IPR003661 GO:0000155|GO:0007165
Lsi02g00857 1143 SUPERFAMILY PYP-like sensor domain (PAS domain) 87 196 IPR035965 -
Lsi02g00857 1143 CDD PAS 625 732 IPR000014 -
Lsi02g00857 1143 Pfam Phytochrome region 412 586 IPR013515 GO:0006355|GO:0009584
Lsi02g00857 1143 SUPERFAMILY GAF domain-like 407 584 - -
Lsi02g00857 1143 MobiDBLite consensus disorder prediction 1 30 - -
Lsi02g00857 1143 Pfam PAS fold 617 731 IPR013767 GO:0006355
Lsi02g00857 1143 Pfam PAS fold 748 867 IPR013767 GO:0006355
Lsi02g00857 1143 Gene3D PAS domain 762 872 - -
Lsi02g00857 1143 Gene3D - 404 577 IPR043150 -
Lsi02g00857 1143 SUPERFAMILY PYP-like sensor domain (PAS domain) 620 728 IPR035965 -
Lsi02g00857 1143 Gene3D PAS domain 86 331 - -
Lsi02g00857 1143 SUPERFAMILY PYP-like sensor domain (PAS domain) 762 864 IPR035965 -
Lsi02g00857 1143 SMART HKATPase_4 1001 1113 IPR003594 -
Lsi02g00857 1143 Gene3D PAS domain 615 736 - -
Lsi02g00857 1143 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 954 1111 IPR036890 -
Lsi02g00857 1143 Gene3D - 931 1107 IPR036890 -
Lsi02g00857 1143 Pfam PAS fold 82 195 IPR013654 GO:0006355
Lsi02g00857 1143 PANTHER PHYTOCHROME E 36 1119 - -
Lsi02g00857 1143 CDD PAS 759 867 IPR000014 -
Lsi02g00857 1143 CDD HATPase_Phy-like 1001 1113 IPR044767 -
Lsi02g00857 1143 PANTHER TWO-COMPONENT HISTIDINE KINASE 36 1119 - -
Lsi02g00857 1143 Pfam His Kinase A (phospho-acceptor) domain 894 953 IPR003661 GO:0000155|GO:0007165
Lsi02g00857 1143 SMART pas_2 747 817 IPR000014 -
Lsi02g00857 1143 SMART pas_2 616 683 IPR000014 -
Lsi02g00857 1143 Gene3D - 209 560 IPR029016 -
Lsi02g00857 1143 SMART HisKA_10 889 953 IPR003661 GO:0000155|GO:0007165
Lsi02g00857 1143 ProSiteProfiles Histidine kinase domain profile. 896 1115 IPR005467 -
Lsi02g00857 1143 ProSiteProfiles PAS repeat profile. 614 685 IPR000014 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi02g00857 K12123 PHYE; phytochrome E - csv:101214900 2094.32
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi02g00857 Lsi-Chr2:8039562 Lsi05g01420 Lsi-Chr5:22155641 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
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
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
Lsi02g00857 Lsi_Chr02 FPKM 22.55411 24.35603 16.978022 15.889958 10.801111 11.32045 11.092184 0.371918 0.319669 0.166039