Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g01364 ATGGTCTGCGAGATGGAGACTGGTGTTATTGAAGATATGGACATCGAAGCGGTTCCTTCTATGTGGCCTGAAGATGTTGGACCAGATGTTAGAAAGCAGTTCAATGTAGAAAGGCCAGGAGCAGATCAAGATATGTTGGAAGAAGTTAACATAATAGAGGAACCGACAATTGTTGATTTCAAGAGACTTATAGAGTTAACTAACTATACTGAGAAAGGATCTTCACAATTACAATATCTTGCAAAGCAGTGGGAGTATAAGCAAGCAAATGCTGTGCGTCTCCTTAAAGAAGAACTTGACATTCTAAGCAAGCAAAGGAAAGAAGTTGAGCTCAAGAAATTAAAAATATTAGAGGAACATCTTTTTGAGGAAGAAAGATATGCTGGTGATAAACGTCCAATTTCTATCTTAGAAGAATCTTGTGATCTATGGCAAGATATTCCAAGCAGGAAAACTGATTTCGTCGTTCAAAGTAAGAGAGTCGAAATTGATGCAGAGTATGATACTGTGACATACTGGAAGCAACGAGCCATGGATCTGGAAAAATTATTGGAAGCAAGTCTACAGCGAGAGCAGATGCTTGCAGAGAAGCTTAAGGAAAACATAAAAAATATTGAAAAGCAGTCCTCACCAGTTGAGGAGTTGTCACAGATTCTTAAAAGAGCCGACAATTTTTTGCATTTTGTTCTGCAGAATGCACCAGTTGTTTTTGGTCATCAGGACAAAGAGCTGCGCTACCGATTTATCTACAATCATTTTCCAAGTTTGCAAGAAGAGGATATTATAGGAAGAACAGACGTTGAAATTTTCAGTGGTGCTGGTGTTAAGGAATCTCAAGATTTCAAGAAAGAAGTTCTGGAGAAAGGGTTACCTGCAAAGAGGGAGATTCAGTTTGATACAGAATTATTTGGGCTGAAGACCTTTTTGATTTACGTTGAACCTGTGTTTAGCAAGGCCGGGGAGACAATTGGAATAAATTATATGGGAATGGACATAACCGATCAGGTTAAAAAACGAGAAAAGATGGCAAAGCTTCGTGAGGAGATTGCAGTACAAAAAGCCAAGGAATCAGAGCTGAACAAAACAATTCATATCACAGAGGAAACAATGCGAGCAAAGCAAATGCTAGCAACCATGTCACATGAAATTAGATCTCCACTGTCTGGAGTGGTTAGTATGGCTGAGATTCTGTCCACCACGAAACTTGATCGGGAGCAACAACATCTGTTAGATGTTATGCTGTCTTCAGGAGATTTGGTGCTTCAACTTATAAATGATATCTTGGACCTTTCTAAGGTTGAATCAGGAGTAATGAAGTTGGAAGCTACAAAGTTTCGTCCAAGAGAGGTTGTAAAACATGTTCTACAGACTGCAGCTGCATCATTGCGAAAATTCTTAGTTCTGGAGGGACGTATAGCAGATGATGTACCTATAGAGGTCATTGGAGATGTTCTTAGGATTCGGCAAATCCTCACCAACTTGATCAGCAACGCCATCAAGTTCACTCATCAAGGGAAGGTTGGAATTAACCTCTATGTGTTACCTTATCCACCCATTGGGACAGAAGAATGCCATAAGAAATCAACGGCTGAAAACTCAACAGTTCCCATAAATGGTTTGCAAGAAGGAACATGTCTTCCAGCCCCTCAAAATGGCTTGTGTGGCCAAAAACACAGCGACAGAAATCATTTGCATTGTGATGCACCAGGAACCCCAAGCAAGAGTGAAACCACAATGAATGGAAACAGAGAAAACAAATCTTGTTCAGCTGAAACGACGGTATGGATACGCTGTGATGTATACGACACAGGAATTGGAATACCAGAAAATGCATTACCAACCCTTTTTAAGAGGTACATGCAAGCTAGTGCCGATCATGCTCGAAAGTATGGAGGGACTGGACTTGGGCTAGCAATATGCAAACAACTGGTTGAATTGATGGGTGGTCATCTCACCGTTTCCAGCCGAGAGAACCAAGGATCTACATTTACATTTGTATTGCCATACAAGGTTTCAACCACCTGCAGTCCTTCCGATGATTCCGACGAGTTGTCAGACGACGACTCTACAAATGACGAAATGACTGAGGGTTTTTTCCAATTCCAACCCCACAGTTTCAGTTCGCTATCATCTTCTAATGGATCCACAAGGATCCCAAACTCATTGTTGCATACAACTGGGTATCCCACCTCAACCAAACTCAATGGATTAGCTGAAGGTGGTTCTTATCCTATCCCCTCAAACAACATCGCACCACAAGAGGCTGCTTCTCTTAGAGATGCCCGTTACGTCAATGCCGCTGCCGTAACCTCAAGTGAATCACAATGTTCATCAAGTCAGATCAACCCAAATCTTGATAACCAAAACTTGTCTCGGTTGCAAAATGTCGGCGGTGTGAATTCCCTTCACAAATCAGAAACAACAAAGCAAGGAGATAGGTTGGAAAAACAAAGTAATAAACTTCAAAAAACAGATCAGGGGAAAGAGAGATCCGATGCAAGTAATCACTGCAGAAATAGCAGTAGTGGTTCTGAAGTAATAATAGCATTGGAACCCAGAATTCTTCTTGTTGAGGATAATAAGACCAATATTATGGTGACTCAGTCCATGATGAAGAAGTTCGGCCAAAAAATCGACGTCGTAACTAATGGCATTGAAGCTGTTCGTGCAGTTCAACGACGTTCTTACGATCTCATTCTCATGGATGTATTCATGCCAGTTATGGATGGGCTTGAAGCTACAAGGTTAATTCGTTCTTTTGAGGAAACAGGCAGTTGGGAGGCAGCTGTTAATGCTGGAATAATCCAACCAACTACACCTTGGACTCCCTCCTCCCGAAACAGGATGCCCATCATTGCTATGACGGCGAATTCAATGTCAGAAAGCGCAGATGAGTGTTATGAAAATGGTATGGACTCATTCGTATCAAAGCCAATCACGTTCCAGAAGTTGAAAGATTGTCTTGAACGATATTTACCACCACCACCTCCCTTGTAA 2997 41.41 MVCEMETGVIEDMDIEAVPSMWPEDVGPDVRKQFNVERPGADQDMLEEVNIIEEPTIVDFKRLIELTNYTEKGSSQLQYLAKQWEYKQANAVRLLKEELDILSKQRKEVELKKLKILEEHLFEEERYAGDKRPISILEESCDLWQDIPSRKTDFVVQSKRVEIDAEYDTVTYWKQRAMDLEKLLEASLQREQMLAEKLKENIKNIEKQSSPVEELSQILKRADNFLHFVLQNAPVVFGHQDKELRYRFIYNHFPSLQEEDIIGRTDVEIFSGAGVKESQDFKKEVLEKGLPAKREIQFDTELFGLKTFLIYVEPVFSKAGETIGINYMGMDITDQVKKREKMAKLREEIAVQKAKESELNKTIHITEETMRAKQMLATMSHEIRSPLSGVVSMAEILSTTKLDREQQHLLDVMLSSGDLVLQLINDILDLSKVESGVMKLEATKFRPREVVKHVLQTAAASLRKFLVLEGRIADDVPIEVIGDVLRIRQILTNLISNAIKFTHQGKVGINLYVLPYPPIGTEECHKKSTAENSTVPINGLQEGTCLPAPQNGLCGQKHSDRNHLHCDAPGTPSKSETTMNGNRENKSCSAETTVWIRCDVYDTGIGIPENALPTLFKRYMQASADHARKYGGTGLGLAICKQLVELMGGHLTVSSRENQGSTFTFVLPYKVSTTCSPSDDSDELSDDDSTNDEMTEGFFQFQPHSFSSLSSSNGSTRIPNSLLHTTGYPTSTKLNGLAEGGSYPIPSNNIAPQEAASLRDARYVNAAAVTSSESQCSSSQINPNLDNQNLSRLQNVGGVNSLHKSETTKQGDRLEKQSNKLQKTDQGKERSDASNHCRNSSSGSEVIIALEPRILLVEDNKTNIMVTQSMMKKFGQKIDVVTNGIEAVRAVQRRSYDLILMDVFMPVMDGLEATRLIRSFEETGSWEAAVNAGIIQPTTPWTPSSRNRMPIIAMTANSMSESADECYENGMDSFVSKPITFQKLKDCLERYLPPPPPL 998
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 21402488 21411643 - Lsi04G013640.1 Lsi04g01364 661413

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g01364 998 CDD REC_hyHK_CKI1_RcsC-like 854 988 - -
Lsi04g01364 998 Gene3D - 849 992 - -
Lsi04g01364 998 Pfam His Kinase A (phospho-acceptor) domain 373 436 IPR003661 GO:0000155|GO:0007165
Lsi04g01364 998 ProSiteProfiles Response regulatory domain profile. 853 992 IPR001789 GO:0000160
Lsi04g01364 998 MobiDBLite consensus disorder prediction 771 805 - -
Lsi04g01364 998 MobiDBLite consensus disorder prediction 571 586 - -
Lsi04g01364 998 MobiDBLite consensus disorder prediction 565 586 - -
Lsi04g01364 998 PRINTS Bacterial sensor protein C-terminal signature 631 649 IPR004358 GO:0016310|GO:0016772
Lsi04g01364 998 PRINTS Bacterial sensor protein C-terminal signature 655 668 IPR004358 GO:0016310|GO:0016772
Lsi04g01364 998 PRINTS Bacterial sensor protein C-terminal signature 596 610 IPR004358 GO:0016310|GO:0016772
Lsi04g01364 998 SMART REC_2 852 988 IPR001789 GO:0000160
Lsi04g01364 998 MobiDBLite consensus disorder prediction 806 835 - -
Lsi04g01364 998 PANTHER HISTIDINE KINASE CYTOKININ RECEPTOR 5 993 - -
Lsi04g01364 998 Pfam Response regulator receiver domain 854 921 IPR001789 GO:0000160
Lsi04g01364 998 Gene3D - 367 435 - -
Lsi04g01364 998 ProSiteProfiles Histidine kinase domain profile. 378 671 IPR005467 -
Lsi04g01364 998 Coils Coil 181 208 - -
Lsi04g01364 998 MobiDBLite consensus disorder prediction 674 694 - -
Lsi04g01364 998 CDD HisKA 370 432 IPR003661 GO:0000155|GO:0007165
Lsi04g01364 998 SMART HKATPase_4 482 671 IPR003594 -
Lsi04g01364 998 Gene3D - 436 675 IPR036890 -
Lsi04g01364 998 SUPERFAMILY Homodimeric domain of signal transducing histidine kinase 371 436 IPR036097 GO:0000155|GO:0007165
Lsi04g01364 998 Coils Coil 92 112 - -
Lsi04g01364 998 SUPERFAMILY CheY-like 852 992 IPR011006 -
Lsi04g01364 998 SMART HisKA_10 371 436 IPR003661 GO:0000155|GO:0007165
Lsi04g01364 998 Coils Coil 342 362 - -
Lsi04g01364 998 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 482 669 IPR003594 -
Lsi04g01364 998 MobiDBLite consensus disorder prediction 771 842 - -
Lsi04g01364 998 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 425 669 IPR036890 -
Lsi04g01364 998 PANTHER TWO-COMPONENT HISTIDINE PROTEIN KINASE 5 993 - -
Lsi04g01364 998 Gene3D PAS domain 213 348 - -
Lsi04g01364 998 CDD HATPase_EvgS-ArcB-TorS-like 487 668 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g01364 - - - csv:101219807 1757.27
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g01364 Lsi-Chr4:21402488 Lsi11g01360 Lsi-Chr11:22210127 1.15E-44 dispersed
Lsi11g01345 Lsi-Chr11:22083090 Lsi04g01364 Lsi-Chr4:21402488 1.27E-06 dispersed
Lsi04g01364 Lsi-Chr4:21402488 Lsi10g00055 Lsi-Chr10:939481 3.11E-51 transposed
       

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
Vvi4g656 Blo01g01429 . Bda01g00649 . . Bpe02g00521 . Bma01g02184 . . Cma01g01683 . Car09g00334 . . . Cpe06g00274 . . . . . . . Cla05g01652 Cam05g1764 Cec05g1770 Cco05g1829 Clacu05g1754 Cmu05g1639 Cre05g1767 Cone4ag1716 Cone7ag1634 . . Lsi04g01364 . . . . . . . . . . . Sed05g1812 Cmo01g01734 Cmo09g00388 Cma09g00387 . Car01g01298 . . Cpe02g00308 Bhi09g03051 Tan01g3520 Cmetu07g0647 . . . . . . . . . . . . . . Cme07g00153
       

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
OG0005508 1 2 1 1 1 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 1 1 1 1 1 4 2 1 40
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25192 PF02518 HATPase_c 4.10E-28 CL0025 Lsi TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g01364 Lsi_Chr04 FPKM 11.022649 12.552072 2.797647 3.586496 6.028086 5.170316 6.219792 0.435723 0.334687 0.427754