ISfinder

ISKrh1

Family IS481
Group

MGE type ISRelated element(s) :
Isoform Synonym(s)

Accession number	Transposition	Origin	Host
NC_010617	ND	Kocuria rhizophila	Kocuria rhizophila DC2201

DNA section

IS Length : 2854 bp

Ends

IR Length : 25/28

IRL : TGTACTAACCGGGGACGTTGATCGAAGACTTACGCGAAGAGTTGCCGAGC
IRR : TGTACTGACCGGAGACGTTGATCGAGGATCGGCCGGTGACGCGAGATACT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
GCAGGCGGCGTCCC	CCTAGA	CGTTCCCGTCGGCA	6
TTGCTGGGGGTTCG	GCTAGC	TGTAGGAGGGCGT	6

DNA sequence

TGTACTAACCGGGGACGTTGATCGAAGACTTACGCGAAGAGTTGCCGAGCGGCGCGGCGGGCGAGATCGTCTGTTTGAAGATCGGGGGTAGCGCCTTCGG
CTGCAAGGGATGCAAGCCCGTGAACCAGGGACCAGGCCACGTGCGCTGCTTCCGAGGTTGTCAGGTGTGCCCTGCGTTCTGCGGGTATTGATTCGACGCC
TGCCATAAGCGCCTCCATCGAGGATGCCCGGGCTGCACTCAACTCACCGTCATCGGCGTGGAGCAGCTCCGGCCTGTGCATCACGGCGTAGTGGCCAGGG
TGCTCACGTGCGAACCTGACGTACGCGACTGCTGCCTCGTCGAAGCCACCAGCCGTGGCTGCGGCCACATCGGCGGCAAGCAGGCGCAGACCTTGCGCGG
CTAGCGCCGTGAGCAGGCCCCGTCGATCGCCGAAATGATGCGCGGGTGCGCCATGCGAGACCCCGGCCCGACGGGCAAGCTCGCGCAGCGACAGTGAACT
GGGTCCAACCTCGTCGATCATCTGCGCCGACTCGTCGAGGAGTGCTCGTCTTAGGTCGCCGTGGTGATATCCGTCGCTCATGACCACACCCTATGAGTTC
GATCTAGGCATCGACCAGATCAAAGGCTAGCCTGATCTAGTCATTGTCTAGATAGGGAGTTCCCATGGCACCTTTGCTCGTCCTACTCGTCTTCACAACT
CTTGCCCGAGCGGTGGGGGCGCTGGGCGTCGGCTACGTCGCCTCCTGGCCCGCCGCCACGGCTGTGGGGCTGGCTGCCATGTTCATCGTGACCGGCGCCA
GCCACTTCTTCCCTGCACGGCGGGCAGGGCTCATCGCCATCGTCCCACCGGCTCTCAAGCATCCCGCCGCGCTGGTCGCACTCACCGGCGTGCTCGAGCT
GCTGGGTGCCGTCGCCCTTCTCGTTCCTCCCGAGGCGGGACAGCTGCGCGTGGCAGCAGCGCTCAGTCTGGCCGTGCTGCTGTTCGTGATGTTCCCCGCG
AATGTCTACGCGTCACAAGCCCGTAGGTCTGAGCACTCACCCAACACGCCCCTGCCGCAGCGAACGGCGATGCAGTGCGTCTTCATCGCGGCGACACTCT
TCGTGGCTCTGGCTTCATGACACGAGGACATCACGCCAACGCCGCTCTCACGCCCCGACACCGACTCAAGGTCGCCCGTCTCGTCGTCGACGACGGCTGG
CCGATCAGTGAAGTCGCCGCGCGGTTCCAAGTGTCATGGCCGACCGTGAAGAGATGGGTCGACCGCTACCTGGTCGGCGAGTCCATGCAGGACCGGTCGT
CGCGCCCGAGGACTTCGCCGAACAAGACCCCGAAGTCGGTGACGAAGCGCTGCGTGAGCCTTCGAATGCGACTGCGGGAAGGGCCCGTTCAGCTCGCTTC
CCGACTCGACATCGCACCGTCCACCGTGCATCGCATCCTCACCACGGCGCGCCTGAACCGGTTGTCCTACGTGGACCGCGCCACCGGTGAGCCCGTCCGC
CGGTACGAGCACCCTCACCCCGGGTCGCTGGTTCACGTGGACGTGAAGAAGGTCGGGAACATCCCTGACGGTGGCGGTTGGCGGTACGTCGGCCGCCGCC
AAGGCGAGAAGAACCGCGCCGCCACGCCAGGCAAGCCGCGCAACCAGTACGGCGGCCCGAAACTCGGGTACGCGTTCGTCCACACCGTCATCGACGACCA
CTCCCGCGTCGCATACACCGAGGTCCACGACGACGAGACCGCCGTCACTGCCGTCGCCGTCCTTCGCCGGGCGGTGCAGTGGTTCGCCGGCCATGGCGTC
ACCATCGAGCGGGTGCTGTCGGACAACGGTGGGGCGTACCGCTCGCACCTGTGGCGCGACACCTGCCATGGCCTGTCGATCACGCCGAAACGGACCTGCC
CGTACCGCCCGCAGACCAATGGGAAGGTGGAGCGCTTCCACCGGACGATGGCCGACGGGTGGGCCTACGCCCGCTGCTACACCAGCGAGCAAGAACGCCG
CGACGCGCTCGAGCCGTGGCTGGGGCACTACAACGAAGTGCGACCGCATACCGCGTGCGGTAACCAGCCGCCACTCACCAAACTCAGAGCGGCTGGCTAC
TCTTCGGTGGCTTCGACGCCCACGCCGGGCGGCTCCTCGGTGAAGAACTCGGGGTCCGAGTAGGGAAGGATCGTCCAGTGGAGATCCTCCGCCGAGTCGA
TCCGGCTAGGAACGGAGGCGTCTTGTTGGCGGGTGTGGTCCTGGATCAGATGCATCTGAACTACCTTGGCCGCTCGACGAATCTGCTCCACGATCCCCCC
GGCGGGTATGTCCAGCGGCGAGGAGATCCGGTCGGCTGCACGGTCGACATAGAAGCCAGCCTGCTTGTCGAGGTTCCGCTGCCGCGCCAACCCATGGAAC
GTCTCCAAGTCCGGCAACTGGTAGTACTCGATCCGACGGTCTGGGTCCCAGAAGCCACCCAGACCTGACGCAAACTGCTCCGCCACCTGCAGCTTTTCTG
CATGTGGTGCGCGGGTGGTGCGTAGGCCGTCCGGAACCCGAACCAGGCCAGGTTCGTGAGGCTGCACCCCGTAGAGGCTCAAAGGTGCACTCCACTCCCA
CTCGGCGGCCTCGTAAAGCCAGCGTGCCTTCGCCACTTCCTCCATCGCGAGCACCAGGAGCGCCTGAGCCCGGCCGGCACTGCCCCGGTCCGCCAGGGCG
TGGGCATCCTCCACAAGCGCCACCGCGTTCGCCATCAGGGACTTCCACCATCGGCGCGCGAAGTCTGCGCTGACCTCTTCAACCTGCGGCTCGCCCATGC
AGCGAGTATCTCGCGTCACCGGCCGATCCTCGATCAACGTCTCCGGTCAGTACA

Protein section

ORF number : 4

ORF 1

Length		Begin	End	Strand	Fusion ORF
552 bp	183 aa	581	30	-	No

ORF function : Passenger Gene
Annotation : Transcriptional regulator, TetR familyDescription : Transcriptional Regulator factor

ORF sequence :

MSDGYHHGDLRRALLDESAQMIDEVGPSSLSLRELARRAGVSHGAPAHHFGDRRGLLTALAAQGLRLLAADVAAATAGGFDEAAVAYVRFAREHPGHYAV
MHRPELLHADDGELSAARASSMEALMAGVESIPAERRAHLTTSEAAHVAWSLVHGLASLAAEGATPDLQTDDLARRAARQLFA

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
456 bp	151 aa	665	1120	+	No

ORF function : Passenger Gene
Annotation : Hypothetical proteinDescription :

ORF sequence :

MAPLLVLLVFTTLARAVGALGVGYVASWPAATAVGLAAMFIVTGASHFFPARRAGLIAIVPPALKHPAALVALTGVLELLGAVALLVPPEAGQLRVAAAL
SLAVLLFVMFPANVYASQARRSEHSPNTPLPQRTAMQCVFIAATLFVALAS

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1047 bp	348 aa	1117	2163	+	No

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MTRGHHANAALTPRHRLKVARLVVDDGWPISEVAARFQVSWPTVKRWVDRYLVGESMQDRSSRPRTSPNKTPKSVTKRCVSLRMRLREGPVQLASRLDIA
PSTVHRILTTARLNRLSYVDRATGEPVRRYEHPHPGSLVHVDVKKVGNIPDGGGWRYVGRRQGEKNRAATPGKPRNQYGGPKLGYAFVHTVIDDHSRVAY
TEVHDDETAVTAVAVLRRAVQWFAGHGVTIERVLSDNGGAYRSHLWRDTCHGLSITPKRTCPYRPQTNGKVERFHRTMADGWAYARCYTSEQERRDALEP
WLGHYNEVRPHTACGNQPPLTKLRAAGYSSVASTPTPGGSSVKNSGSE

Blast result :

ORF 4

Length		Begin	End	Strand	Fusion ORF
741 bp	246 aa	2837	2097	-	No

ORF function : Passenger Gene
Annotation : Hypothetical proteinDescription :

ORF sequence :

MIEDRPVTRDTRCMGEPQVEEVSADFARRWWKSLMANAVALVEDAHALADRGSAGRAQALLVLAMEEVAKARWLYEAAEWEWSAPLSLYGVQPHEPGLVR
VPDGLRTTRAPHAEKLQVAEQFASGLGGFWDPDRRIEYYQLPDLETFHGLARQRNLDKQAGFYVDRAADRISSPLDIPAGGIVEQIRRAAKVVQMHLIQD
HTRQQDASVPSRIDSAEDLHWTILPYSDPEFFTEEPPGVGVEATEE

Blast result :

Comments

The third ORF is the transposase, it is 73% aa similar to IS5564.The first ORF is annotated as TetR family transcriptional regulator, the second and the fourth as hypothetical protein.

References

1] Takarada,H., Sekine,M., Kosugi,H., Matsuo,Y., Fujisawa,T., Omata,S., Kishi,E., Shimizu,A., Tsukatani,N., Tanikawa,S., Fujita,N. and Harayama,S.(2008) J. Bacteriol. 190 (12), 4139-4146
2] ISfinder annotation (2008)