Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lcy13g2288 ATGTCATCAAGTAGACCGAGCCAGTCCACGAACACGGGAGGATCCTCGTCGTCCTCACAATCAAGACACAGCACTCGAATCCTCACTCAAACCTCCATAGACGCAAAGCTCCACTCCCACTTCGAACAATCTGGCTCTTCCTTCGACTACTCCACTTCAGTCCATCTCACAACCAATCCACCGCCGCCAACCACCACCACCACAACCACCGCATACCTCCACCACATCCAAAAATCCAACCTCATCCAGCCCTTCGGCTGCCTCTTGGCCCTCCACCCAACCTCCCTCAAGCTCATCGCCTTCAGCCAAAACGCCCCCGAATTCCTCACCTCCGTCACCCACACCGTCCCCACCATCTCCGACCACCCCCTCCTCTCCCTCGGCTCCGACCTCCGCTCCATCTTCACCGCCCCCTCCGCCGCCGCCCTCCTCAAGGCCCTCGCCTTCCCTGACCTCACCCTCCTCAACCCCATTCTCGTCCACTCCAAGTCCTCCGGCAAGCCCTTCTACGCCATCGTCCACCGTGTCACCGCCAGCCTCATCATCGACTTCGAACCCGTCAAGCCCGATGAAGTCCCGATCACCGCCGCCGGGGCTCTCCAGTCCTACAAGCTCGCAGCCAAAGCCATCACTCGCCTCCAAGCTCTCCCCAGCGGGAGCATGGCCAGGCTCTGTGACACCATGGTCCAAGAGGTCTTTGAGCTGACGGGTTATGACAGGGTCATGGCTTATAGGTTTCACGATGACGATCATGGGGAGGTTTTCTCTGAGGTTACTAAGCCTGGGCTCGAGCCTTATCTGGGTCTGCATTATCCTGCCACTGACATTCCTCAGGCTGCCAGGTTCTTGTTCATGAAGAATAAGGTTAGAATGATTGTGGACTGCAGAGCCAAGCATGTCAAGGTGCTTCAAGATCCAAACCTTGAGTTTGATTTGACTTTGTGCGGCTCCACTTTGAGGGCTCCTCATACTTGCCATTTGCAGTATATGGAGAATATGGATTCTATTGCTTCTTTGGTCATGGCAGTTGTGGTGAATGATCAGGAGGATCAAGAGGAATTTGATCATAATACTAATCAGAAACACAAGAGGAAAAGATTGTGGGGTTTGGTGGTTTGTCATAATACAACACCTAGATTTGTTCCTTTTCCTCTTAGATATGCTTGTGAGTTTCTAGCTCAAGTGTTTGCCATTCATGTGAACAAGGAATTGGAGTTGGAGAGTCAGATTTTGGAGAAGAATATCTTGAGAACTCAAACGCTTTTGTGTGACATGTTGATGCGTGATGCTCCTTTGGGGATTGTGTCAAGGAGCCCTAATATAATGGATCTTGTCAAATCTGATGGGGCTGCATTGTTGTACAAGAATAAGGTATGGAGATTGGGGATTACTCCCAGTGATTTTCACCTTCATGACATTGCTTCATGGATTTTGGAGTATCATATGGATTCCACTGGCTTGAGTACTGATAGCTTGTACGATGCCGGGTACCCCGGCGCGCTTGCCCTAGGCGATGCCGTGTGCGGGATGGCGGCCGTGAGGATAGCTTCCGACGACATGATCTTCTGGTTCCGATCGCACACTGCGTCGGAGATCCGGTGGGGCGGGGCGAAGCACGAGCCTGGTGAGAAGGATGATGGAAGGAAAATGCATCCCAGGTCATCTTTCAAGGCTTTTCTTGAAGTGGTCAAGACAAGGAGTTTGCCTTGGAAGGACTTTGAAATGGATGCAATCCATTCTTTGCAACTCATCCTAAGAAACACTTACAAAGATACAGATAGTGTGAGTGAGATCAATAGAAAATCAATACAATCCACACTCAGTGACCTTAAAATTGATGGGAGGCAAGAACTGGAATCAGTAACAAGTGAGATGGTCAGGCTGATTGAAACAGCCACAGTTCCAATTTTGGCTGTTGATGTGGATGGATTGGTTAATGGGTGGAACTCAAAAATTGCTGAATTGACTGGACTCTCTGTTGACAAAGCTATTGGCAAGCATTTGCTCACATTGGTGGAAGATTCTTCTGTAGAAATTGTTAAGAAGATGCTGTTCTTGGCATTGCAAGGCCAAGAAGAGAAAAACGTTCAATTTGAGATAAAAACACACGGCTGTCAGTCTGAGATCGAGTCAGCTGGCTCCATAAGCCTAATAGTAAATGCTTGTGCAAGCAAGGACTTAAGCGAAAACGTAGTGGGAGTTTGCTTTGTAGCACAAGACATAACTCATCAAAAGCTGGTAATGGACAAGTTCACAAAATTACAAGGCGATTACAAAGCCATAGTACAAAACCCCAACCCACTGATCCCTCCAATCTTCGGCCTAGACGAATTCGGCTGGTGCACTGAATGGAACTTAGCAATGACAAAGCTAAGTGGGTTCTCACGTGAACAAGTCCTCAACAAAATGCTCTTAGGAGAGGTTTTTGGCACACAACAAAGGTCCTGTTGCCATCTAAAGAACCAAGAAGCCTTTGTGAATCTTGGCATCGTCTTGAACAATGCCATGAGCGGCCAGGACCCTGAAAAGATTTCGTTTGGCTTCTTTGCCAGAAATGGGATGTTCGTAGAATGTCTTCTGTGTGTCAACAAGATTGTGGATGGAGATGGTGGAGTGATTGGCGTTTTTTGCTTTCTGCAACTCGCCAGCCAAGAGCTTCAACAGGCTTTGAATGTTCAAAGATTGTGTGAGAGAACGGCTTTGAAGAGACTGAAGGCATTGGGATATATCAAGAGGCAGATTCGTAATCCTCTTTGTGGGATTGTTTTCTCAAGGAAAATGTTGGAACGAACTCAGCTGGGAGTAGAACAGAAGCAACTTTTGCTTAATAGTTTCAATTGTCAGAGGCAGATCTCCAAGGTTCTTGATGAGTCGGATGATCTTGATCACATCATTGAAGGTTTGATTGATTTAGAAATGGTTGAGTTTTCATTGTATGAAGTATTGGTGGTATCAATCAGTCAAGTGACGATGAAGAGCAAAGGGAAAGGTATCCAAATAGTAAATGAGGTTGCTGAAGAGATCATGTCTGAGACCTTATATGGAGACAATTTGAGACTTCAACAAGTCATGGCTGATTTCTTGTTGATATCAGTTAATTATGCACCAACAGGAGGCCAACTCTTGCTTACAACCAATTTGACTAAGGATCATTTAGGAAACTCAGTACATCTTGTGCATGTGGACTTCAGGATAACCTATGTAGGTGGAGGCATACCAGAATCATTGTTGAATGAGATGTTTGGAAGCGATGAGGATGCATCAGAAGAAGGTTTTAGCTTACTCATAAGTAGAAAGCTGGTGAAGATGATGAATGGAGATGTGAGATATGTGAGGGAAGCAGGCAAGTCAAGCTTCATCTTAACTGTTGAGCTTGCTGCAGCAAATAATAATCAAGTTAAGAACAACCTAAGCTAA 3417 46.74 MSSSRPSQSTNTGGSSSSSQSRHSTRILTQTSIDAKLHSHFEQSGSSFDYSTSVHLTTNPPPPTTTTTTTAYLHHIQKSNLIQPFGCLLALHPTSLKLIAFSQNAPEFLTSVTHTVPTISDHPLLSLGSDLRSIFTAPSAAALLKALAFPDLTLLNPILVHSKSSGKPFYAIVHRVTASLIIDFEPVKPDEVPITAAGALQSYKLAAKAITRLQALPSGSMARLCDTMVQEVFELTGYDRVMAYRFHDDDHGEVFSEVTKPGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRAKHVKVLQDPNLEFDLTLCGSTLRAPHTCHLQYMENMDSIASLVMAVVVNDQEDQEEFDHNTNQKHKRKRLWGLVVCHNTTPRFVPFPLRYACEFLAQVFAIHVNKELELESQILEKNILRTQTLLCDMLMRDAPLGIVSRSPNIMDLVKSDGAALLYKNKVWRLGITPSDFHLHDIASWILEYHMDSTGLSTDSLYDAGYPGALALGDAVCGMAAVRIASDDMIFWFRSHTASEIRWGGAKHEPGEKDDGRKMHPRSSFKAFLEVVKTRSLPWKDFEMDAIHSLQLILRNTYKDTDSVSEINRKSIQSTLSDLKIDGRQELESVTSEMVRLIETATVPILAVDVDGLVNGWNSKIAELTGLSVDKAIGKHLLTLVEDSSVEIVKKMLFLALQGQEEKNVQFEIKTHGCQSEIESAGSISLIVNACASKDLSENVVGVCFVAQDITHQKLVMDKFTKLQGDYKAIVQNPNPLIPPIFGLDEFGWCTEWNLAMTKLSGFSREQVLNKMLLGEVFGTQQRSCCHLKNQEAFVNLGIVLNNAMSGQDPEKISFGFFARNGMFVECLLCVNKIVDGDGGVIGVFCFLQLASQELQQALNVQRLCERTALKRLKALGYIKRQIRNPLCGIVFSRKMLERTQLGVEQKQLLLNSFNCQRQISKVLDESDDLDHIIEGLIDLEMVEFSLYEVLVVSISQVTMKSKGKGIQIVNEVAEEIMSETLYGDNLRLQQVMADFLLISVNYAPTGGQLLLTTNLTKDHLGNSVHLVHVDFRITYVGGGIPESLLNEMFGSDEDASEEGFSLLISRKLVKMMNGDVRYVREAGKSSFILTVELAAANNNQVKNNLS 1138
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
13 41793103 41797901 - Maker00025187 Lcy13g2288 652593

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lcy13g2288 1138 PRINTS Phytochrome signature 719 736 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Lcy13g2288 1138 PRINTS Phytochrome signature 552 570 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Lcy13g2288 1138 PRINTS Phytochrome signature 519 538 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Lcy13g2288 1138 PRINTS Phytochrome signature 320 341 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Lcy13g2288 1138 PRINTS Phytochrome signature 135 157 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Lcy13g2288 1138 PRINTS Phytochrome signature 624 640 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Lcy13g2288 1138 PRINTS Phytochrome signature 235 254 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Lcy13g2288 1138 PRINTS Phytochrome signature 434 454 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Lcy13g2288 1138 PRINTS Phytochrome signature 643 658 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Lcy13g2288 1138 PRINTS Phytochrome signature 739 759 IPR001294 GO:0006355(InterPro)|GO:0009584(InterPro)
Lcy13g2288 1138 ProSiteProfiles Histidine kinase domain profile. 909 1129 IPR005467 -
Lcy13g2288 1138 Gene3D PAS domain 617 755 - -
Lcy13g2288 1138 PANTHER OS08G0260000 PROTEIN 1 711 - -
Lcy13g2288 1138 SMART HKATPase_4 1015 1127 IPR003594 -
Lcy13g2288 1138 Coils Coil 401 421 - -
Lcy13g2288 1138 ProSitePatterns Phytochrome chromophore attachment site signature. 320 329 IPR013516 -
Lcy13g2288 1138 Gene3D PAS domain 75 323 - -
Lcy13g2288 1138 Gene3D - 201 565 IPR029016 -
Lcy13g2288 1138 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 1015 1125 IPR003594 -
Lcy13g2288 1138 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 220 394 IPR016132 -
Lcy13g2288 1138 FunFam Phytochrome 617 751 - -
Lcy13g2288 1138 Pfam Phytochrome region 417 590 IPR013515 GO:0006355(InterPro)|GO:0009584(InterPro)
Lcy13g2288 1138 PIRSF Phytochrome_conventional 2 1134 IPR012129 GO:0006355(InterPro)|GO:0009585(InterPro)|GO:0009881(InterPro)|GO:0017006(InterPro)|GO:0042803(InterPro)
Lcy13g2288 1138 NCBIfam PAS domain S-box protein 628 745 IPR000014 -
Lcy13g2288 1138 MobiDBLite consensus disorder prediction 1 25 - -
Lcy13g2288 1138 SUPERFAMILY PYP-like sensor domain (PAS domain) 627 702 IPR035965 -
Lcy13g2288 1138 SUPERFAMILY GAF domain-like 412 589 - -
Lcy13g2288 1138 FunFam Phytochrome 409 540 - -
Lcy13g2288 1138 SMART gaf_1 220 414 IPR003018 GO:0005515(InterPro)
Lcy13g2288 1138 SUPERFAMILY PYP-like sensor domain (PAS domain) 76 190 IPR035965 -
Lcy13g2288 1138 CDD PAS 632 741 IPR000014 -
Lcy13g2288 1138 Gene3D - 946 1120 IPR036890 -
Lcy13g2288 1138 SUPERFAMILY PYP-like sensor domain (PAS domain) 771 878 IPR035965 -
Lcy13g2288 1138 CDD PAS 768 880 IPR000014 -
Lcy13g2288 1138 ProSiteProfiles PAS repeat profile. 757 809 IPR000014 -
Lcy13g2288 1138 SMART pas_2 623 689 IPR000014 -
Lcy13g2288 1138 SMART pas_2 756 826 IPR000014 -
Lcy13g2288 1138 SMART HisKA_10 902 977 IPR003661 GO:0000155(InterPro)|GO:0007165(InterPro)
Lcy13g2288 1138 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 965 1122 IPR036890 -
Lcy13g2288 1138 Pfam GAF domain 222 403 IPR003018 GO:0005515(InterPro)
Lcy13g2288 1138 ProSiteProfiles PAS repeat profile. 621 691 IPR000014 -
Lcy13g2288 1138 Pfam PAS fold 624 741 IPR013767 GO:0006355(InterPro)
Lcy13g2288 1138 Pfam PAS fold 757 880 IPR013767 GO:0006355(InterPro)
Lcy13g2288 1138 SUPERFAMILY GAF domain-like 200 401 - -
Lcy13g2288 1138 Gene3D - 409 582 IPR043150 -
Lcy13g2288 1138 Pfam PAS fold 71 187 IPR013654 GO:0006355(InterPro)
Lcy13g2288 1138 Gene3D PAS domain 770 887 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lcy13g2288 K12120 - - csv:101219585 1896.71
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lcy13g2288 Lcy-Chr13:41793103 Lcy4g0391 Lcy-Chr4:4806130 0 dispersed
Lcy13g2288 Lcy-Chr13:41793103 Lcy13g2291 Lcy-Chr13:41827690 0 proximal
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lcy6g2314 . 5 1163 Histidine Kinase Gene Family AT2G17820 62.7 0.0e+00 1379.0
Lcy7g1375 . 28 1013 Histidine Kinase Gene Family AT2G01830 72.0 0.0e+00 1349.3
Lcy10g1594 . 23 1006 Histidine Kinase Gene Family AT2G01830 71.8 0.0e+00 1336.6
Lcy3g1254 . 125 1094 Histidine Kinase Gene Family AT2G01830 52.0 1.1e-272 937.2
Lcy8g1364 . 304 1260 Histidine Kinase Gene Family AT2G01830 51.0 6.2e-257 884.8
Lcy4g0365 . 18 831 Histidine Kinase Gene Family AT2G01830 53.9 3.0e-235 812.8
Lcy9g1919 . 92 1121 Histidine Kinase Gene Family AT5G10720 57.2 9.5e-294 1006.9
Lcy13g2291 . 1 1120 Histidine Kinase Gene Family AT1G09570 80.6 0.0e+00 1841.6
Lcy13g2288 . 1 1129 Histidine Kinase Gene Family AT1G09570 73.9 0.0e+00 1691.8
Lcy4g0391 . 18 1110 Histidine Kinase Gene Family AT1G09570 55.6 0.0e+00 1227.6
Lcy11g1336 . 27 1120 Histidine Kinase Gene Family AT1G09570 54.7 0.0e+00 1203.7
Lcy11g1336 . 13 1061 Histidine Kinase Gene Family AT2G18790 79.0 0.0e+00 1675.6
Lcy5g1781 . 31 1051 Histidine Kinase Gene Family AT2G18790 61.3 0.0e+00 1261.9
Lcy13g2291 . 21 1054 Histidine Kinase Gene Family AT2G18790 53.6 0.0e+00 1094.0
Lcy4g0391 . 26 1067 Histidine Kinase Gene Family AT2G18790 52.4 1.1e-312 1070.1
Lcy13g2288 . 7 1064 Histidine Kinase Gene Family AT2G18790 51.4 8.0e-311 1063.9
Lcy4g0391 . 12 1114 Histidine Kinase Gene Family AT5G35840 62.4 0.0e+00 1387.9
Lcy11g1336 . 21 1122 Histidine Kinase Gene Family AT5G35840 53.0 0.0e+00 1162.1
Lcy13g2291 . 9 1114 Histidine Kinase Gene Family AT5G35840 51.8 0.0e+00 1120.9
Lcy11g1336 . 3 1122 Histidine Kinase Gene Family AT4G16250 76.2 0.0e+00 1721.1
Lcy5g1781 . 32 1113 Histidine Kinase Gene Family AT4G16250 59.2 0.0e+00 1300.4
Lcy13g2291 . 8 1115 Histidine Kinase Gene Family AT4G16250 52.7 0.0e+00 1139.8
Lcy4g0391 . 26 1113 Histidine Kinase Gene Family AT4G16250 52.4 0.0e+00 1113.2
Lcy13g2288 . 8 1125 Histidine Kinase Gene Family AT4G16250 50.7 0.0e+00 1087.0
Lcy5g1781 . 15 1114 Histidine Kinase Gene Family AT4G18130 63.9 0.0e+00 1401.7
Lcy11g1336 . 3 1120 Histidine Kinase Gene Family AT4G18130 57.5 0.0e+00 1274.6
       

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