Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi06g01681 ATGGCTAGAGTTCTGGTTCAGTCGACAAATATTCCTGGTTTGGTCGGTGGAAGAAAGAATGGCCAATCATCAAGGGGGTCAGCAAATGTAAAACGGGTTGTTAAAATGATGGCCACCGTACATGCACCTGGTTTGACCATAAGAAGTTTCTCTGGACTCAGAGGATTTAATTCTTTGGATAACATGTTGAGAACTGGAAAAGATTTTCATTCCAAGATGGCCATTACAATCTCTTCTAGGAGACGAAAGGCTAGCAGATGTGTTCCAAGAGCTATGTTTGAGCGGTTCACAGAAAAGGCAATTAAAGTCATCATGCTTGCCCAGGAGGAAGCGAGGCGTCTTGGTCACAATTTTGTTGGCACAGAGCAGATACTTTTAGGTCTTATTGGCGAAGGCACTGGCATCGCTGCTAAGGTTCTTAAATCTATGGGAATTAATCTTAAAGATGCGCGCGTGGAGGTGGAGAAGATAATTGGTAGGGGCAGTGGATTTGTTGCTGTAGAAATTCCATTCACTCCTCGTGCAAAGCGTGTTTTGGAACTTTCTCTAGAGGAAGCTCGCCAACTTGGCCACAATTATATTGGGTCAGAGCACTTGCTTCTGGGACTACTTCGTGAAGGTGAGGGTGTTGCAGCTCGTGTTCTTGAAAACCTAGGTGCTGATCCTAGTAACATTCGTACTCAGGTTATTCGAATGGTTGGTGAGAGCACCGAGGCTGTTGGTGCTGGTGTTGGAGGAGGAAGCAGTGGGAACAAGATGCCAACCCTGGAAGAGTATGGCACAAATTTAACTAAGCTGGCTGAAGAGGGTAAACTAGATCCTGTTGTTGGAAGGCAGCAGCAAATAGAACGTGTAACCCAGATTTTGGGTCGGCGTACAAAAAATAATCCTTGCCTCATTGGCGAGCCTGGTGTTGGGAAAACTGCTATTGCAGAAGGTCTGGCGCAAAGGATTGCTAATGGGGATGTCCCTGAAACAATAGAAGGAAAGAAGGTTATAACCCTGGATATGGGCCTTCTCGTAGCTGGCACAAAATATCGTGGAGAGTTTGAGGAAAGATTAAAGAAACTGATGGAGGAAATTAAACAAAGTGATGAGATTATCCTTTTTATTGATGAGGTGCACACATTAATTGGAGCAGGGGCTGCAGAAGGAGCTATTGATGCGGCAAATATATTGAAACCTGCCCTCGCAAGAGGTGAACTGCAGTGCATTGGAGCCACGACATTGGATGAATACAGGAAGCACATTGAGAAAGACCCAGCCTTAGAAAGAAGATTTCAGCCAGTCAAAGTGCCAGAACCATCTGTGGATGAAACCATACAGATTTTGAAAGGCCTTAGGGAGCGGTATGAAATCCACCACAAACTTCGTTACACAGATGAAGCATTAGTAGCTGCTGCGCAGCTGTCATACCAGTACATCAGGGTGCTCATGGAGCTGTGCCTTCCCATATTTGTTATCTTAGGGGGCTTTATGGAAGCATCATGGGACACTGGAACATGTGAGGTCAGTGTGCCTGATGATATCAGCATGGTGCTGAGGCACCTGTTTGACCGATTCTTGCCTGATAAGGCAATCGACTTGGTTGATGAAGCAGGTTCTCGGGTTCGCCTTCGTCATGCTCAGCTACCTGAGGAAGCCAGGGAGCTTGAGAAAGAGCTGAGGCAGATCACAAAGGAGAAGAATGAGGCTGTTCGAAGTCAAGACTTTGAGAAGGCTGGAGAATTGCGTGATAGAGAAATGGAACTTAAGACTAAGATCTCTGCTCTAGTAGATAAGGGCAAGGAGATGAGCAAGGCTGAAAGCGAGGCAGGAGATGTAGGCCCCATTGTGACTGAGGTTGATATTCAGCATATTGTCTCCTCCTGGACTGGCATTCCTGTTGAGAAAGTATCTACCGACGAATCTGATCGCCTCCTGAAAATGGAAGAGACCCTCCATAAGAGGGTCATTGGTCAAGATGAAGCAGTTAAAGCCATCAGCCGTGCCATACGGCGAGCTCGTGTTGGTCTGAAGAATCCCAATCGTCCAATTGCAAGCTTTATATTTTCTGGTCCAACTGGTGTTGGTAAATCTGAGTTAGCAAAAGCGTTGGCTGCATACTATTTTGGGTCTGAAGAAGCAATGATCCGCCTTGACATGAGTGAATTTATGGAAAGGCATACGGTCTCCAAGCTCATTGGTTCCCCTCCTGGTTATGTTGGTTACACGGAGGGCGGTCAATTAACTGAGGCTGTTCGTCGTCGTCCATACACAGTGGTGCTCTTTGATGAGATTGAGAAGGCTCATCCTGATGTGTTCAACATGATGCTTCAAATCTTAGAGGATGGAAGGTTGACAGATAGTAAGGGTAGGACAGTAGACTTCAAAAATACACTTTTGATAATGACATCAAATGTGGGAAGCAGTGTTATAGAGAAGGGAGGTCGCAGAATAGGGTTTGACCTTGATTATGACGAGAAGGATAGTAGTTATAACCGGATCAAGAGCTTGGTGACAGAGGAACTGAAACAATACTTCAGGCCTGAGTTTTTGAATAGGTTGGACGAGATGATTGTCTTCCGTCAGCTCACAAAACTGGAGGTGAAAGAGATTGCGGATATAATGCTGAAGGAAGTATTTGATAGGTTAAAAGCAAAAGAAATAGACCTTCAAGTGACAGAGAGATTCAGAGATAGGGTGGTGGAGGAAGGATATAACCCAAGCTACGGTGCGAGACCATTGAGAAGGGCAATAATGAGACTTTTAGAGGACAGCATGGCAGAGAAGATGCTGGCAAGGGAGATCAAGGAGGGTGACTCAGTAATAGTGGATGTTGATTCAGACGGAAACGTCACAGTGCTCAATGGCAGCAGTGGTGCTCCCGAGTCCTTGCCCGATGCCATCCCCGTGTAA 2898 45.86 MARVLVQSTNIPGLVGGRKNGQSSRGSANVKRVVKMMATVHAPGLTIRSFSGLRGFNSLDNMLRTGKDFHSKMAITISSRRRKASRCVPRAMFERFTEKAIKVIMLAQEEARRLGHNFVGTEQILLGLIGEGTGIAAKVLKSMGINLKDARVEVEKIIGRGSGFVAVEIPFTPRAKRVLELSLEEARQLGHNYIGSEHLLLGLLREGEGVAARVLENLGADPSNIRTQVIRMVGESTEAVGAGVGGGSSGNKMPTLEEYGTNLTKLAEEGKLDPVVGRQQQIERVTQILGRRTKNNPCLIGEPGVGKTAIAEGLAQRIANGDVPETIEGKKVITLDMGLLVAGTKYRGEFEERLKKLMEEIKQSDEIILFIDEVHTLIGAGAAEGAIDAANILKPALARGELQCIGATTLDEYRKHIEKDPALERRFQPVKVPEPSVDETIQILKGLRERYEIHHKLRYTDEALVAAAQLSYQYIRVLMELCLPIFVILGGFMEASWDTGTCEVSVPDDISMVLRHLFDRFLPDKAIDLVDEAGSRVRLRHAQLPEEARELEKELRQITKEKNEAVRSQDFEKAGELRDREMELKTKISALVDKGKEMSKAESEAGDVGPIVTEVDIQHIVSSWTGIPVEKVSTDESDRLLKMEETLHKRVIGQDEAVKAISRAIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHTVSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDSKGRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDYDEKDSSYNRIKSLVTEELKQYFRPEFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFDRLKAKEIDLQVTERFRDRVVEEGYNPSYGARPLRRAIMRLLEDSMAEKMLAREIKEGDSVIVDVDSDGNVTVLNGSSGAPESLPDAIPV 965
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 26995479 27004279 - Lsi06G016810.1 Lsi06g01681 666411

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi06g01681 965 PRINTS ATP-dependent Clp protease ATP-binding subunit signature 789 803 IPR001270 GO:0005524
Lsi06g01681 965 PRINTS ATP-dependent Clp protease ATP-binding subunit signature 682 700 IPR001270 GO:0005524
Lsi06g01681 965 PRINTS ATP-dependent Clp protease ATP-binding subunit signature 727 745 IPR001270 GO:0005524
Lsi06g01681 965 PRINTS ATP-dependent Clp protease ATP-binding subunit signature 756 774 IPR001270 GO:0005524
Lsi06g01681 965 Gene3D - 508 629 - -
Lsi06g01681 965 Gene3D - 246 436 IPR027417 -
Lsi06g01681 965 SMART ClpB_D2_small_2 858 948 IPR019489 -
Lsi06g01681 965 SMART AAA_5 678 859 IPR003593 -
Lsi06g01681 965 SMART AAA_5 293 433 IPR003593 -
Lsi06g01681 965 ProSiteProfiles UVR domain profile. 552 587 IPR001943 GO:0005515
Lsi06g01681 965 PANTHER ATP-DEPENDENT CLP PROTEASE 76 476 - -
Lsi06g01681 965 Pfam AAA lid domain 510 579 IPR041546 -
Lsi06g01681 965 Pfam AAA lid domain 436 476 IPR041546 -
Lsi06g01681 965 Gene3D UVR domain 547 601 - -
Lsi06g01681 965 ProSiteProfiles Clp repeat (R) domain profile. 93 235 IPR004176 -
Lsi06g01681 965 PANTHER ATP-DEPENDENT CLP PROTEASE 513 965 - -
Lsi06g01681 965 ProSitePatterns Chaperonins clpA/B signature 1. 388 400 IPR018368 GO:0005524
Lsi06g01681 965 PANTHER ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPA HOMOLOG CD4B, CHLOROPLASTIC 76 476 - -
Lsi06g01681 965 Gene3D - 92 240 IPR036628 -
Lsi06g01681 965 CDD AAA 652 800 - -
Lsi06g01681 965 Coils Coil 347 367 - -
Lsi06g01681 965 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 253 482 IPR027417 -
Lsi06g01681 965 Gene3D - 630 856 IPR027417 -
Lsi06g01681 965 Pfam AAA domain (Cdc48 subfamily) 677 851 IPR003959 GO:0005524|GO:0016887
Lsi06g01681 965 Pfam C-terminal, D2-small domain, of ClpB protein 858 938 IPR019489 -
Lsi06g01681 965 Pfam ATPase family associated with various cellular activities (AAA) 298 414 IPR003959 GO:0005524|GO:0016887
Lsi06g01681 965 Coils Coil 541 568 - -
Lsi06g01681 965 Pfam Clp amino terminal domain, pathogenicity island component 107 159 IPR004176 -
Lsi06g01681 965 Pfam Clp amino terminal domain, pathogenicity island component 183 234 IPR004176 -
Lsi06g01681 965 Gene3D - 858 954 - -
Lsi06g01681 965 PANTHER ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPA HOMOLOG CD4B, CHLOROPLASTIC 513 965 - -
Lsi06g01681 965 ProSitePatterns Chaperonins clpA/B signature 2. 712 730 IPR028299 -
Lsi06g01681 965 Gene3D - 437 478 IPR027417 -
Lsi06g01681 965 SUPERFAMILY Double Clp-N motif 94 234 IPR036628 -
Lsi06g01681 965 CDD AAA 276 428 - -
Lsi06g01681 965 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 627 944 IPR027417 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi06g01681 K03696 clpC; ATP-dependent Clp protease ATP-binding subunit ClpC - csv:101207083 1677.53
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi02g01374 Lsi-Chr2:18637568 Lsi06g01681 Lsi-Chr6:26995479 0 dispersed
Lsi02g01781 Lsi-Chr2:23576449 Lsi06g01681 Lsi-Chr6:26995479 3.69E-13 dispersed
Lsi05g01304 Lsi-Chr5:20801145 Lsi06g01681 Lsi-Chr6:26995479 1.16E-10 dispersed
Lsi06g01681 Lsi-Chr6:26995479 Lsi07g01019 Lsi-Chr7:15126158 0 dispersed
Lsi06g01681 Lsi-Chr6:26995479 Lsi02g00111 Lsi-Chr2:903077 0 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
Vvi17g29 . . Bda06g00709 Bda15g00698 . . . . . . Cma10g00018 Cma11g00007 Car10g00013 Car11g00006 . . . . . . . . . . Cla06g01783 Cam06g1977 Cec06g2027 Cco06g2035 Clacu06g1934 Cmu06g1875 Cre06g2687 . . Cone13ag0256 Cone19ag0241 . . . . . Blo15g00190 . . Bpe07g00907 . . . . Cmo10g00016 Cmo11g00006 . . . . . Cpe18g00938 . . . . . . . . . . . . . . Lsi06g01681 Csa01g00010 Chy02g02703 Cme02g02111
       

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
OG0002235 2 2 2 1 2 2 3 2 2 2 2 2 4 2 2 4 2 2 4 2 2 1 2 2 2 2 1 2 2 1 63
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi06g01681 Lsi_Chr06 FPKM 3.8361 4.358924 4.496868 4.554839 7.376995 6.995378 9.243197 6.281295 6.947744 7.294818