ISfinder Mirror Site

ISPye24

Family IS5
Group IS427

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

Accession number	Transposition	Origin	Host
CP020444	ND	Paracoccus yeei	Paracoccus yeei Paracoccus yeei FDAARGOS_252 Paracoccus yeei CCUG 32053

DNA section

IS Length : 853 bp

Ends

IR Length : 13/15

IRL : GGGTCAGGACCCATTGATCATCTGCTCGCGGCGTGATTCAGCCTCCTCAA
IRR : GGGTCAGGACTCGTTCTCGCTTCATAGCCAGAACATGACGGTAGCAGCGA

Insertion site

Left flank	Direct repeat	Right flank	DR Length
cagggattgc	TA	gaaagcgaga	2
actgtaatgt	TA	gtgattgagg	2
caatcgccgc	TA	ggaagcgtct	2
tgccatgccc	TA	ggtgaaagcg	2

DNA sequence

GGGTCAGGACCCATTGATCATCTGCTCGCGGCGTGATTCAGCCTCCTCAAGGAGACTGAAGAATGAGCAACCTTTTCTGGCTGACCGACGCGCAGATGGC
GCGGCTCGAGCCGTTCTTTCCCAAGAGTCATGGCAAGCCGCGCGTCGATGACCGACGGGTCTTGAGCGGAATAATCTTCATCAATCGCAACGGGTTGCGG
TGGCGCGATGCGCCAAGGGAATACGGCCCTCCGAAGACCCTCTACAACCGCTGGAAGCGGTGGAGTGACAAAGGGGTCTTCGCCCGGATGATGGATGGCT
TGGCGGCCGAGGCCGCTGTTCCGAAGACGGTGATGATCGACGCGACCTATCTCAAGGCGCACCGCACGGCGACCAGCCTGCGGTCGAAAAAGGGGGGCCA
GGCGACCAGAGGGGCCGTCTGATCGGCCGCACGAAGGGCGGTATGAACACCAAGCTGCATGCTGTCACCGATGCTGATGGCCGCCTGATCCGGTTCTTCA
TGACTGCAGGCCAGGTCAGCGATTACACCGGCGCGGCGGCACTGTTGGGCAGCTTGCCAAAGGCGGAGTGGCTGCTGGCCGACCGGGGTGACGACGCCGA
TTGGTTTCGCGAAGCGTTGAAAGACAATGGGATAAAGCCCTGCATTCCGGGCAGGAGGTCGCGCGGCAAGCCAATCAAGCACGACAAACGACGCTACAAA
CGCCGCAACCGGATCGAGATCATGTTCGGGCGACTGAAGGACTGGCGGCGGATTGCTACTCGCTACGACCGATGCCCAAAGGTCTTCCTCTCAGCCGTCG
CACTCGCTGCTACCGTCATGTTCTGGCTATGAAGCGAGAACGAGTCCTGACCC

Recoding section

Recoding by frameshift
Frame -1
Type translational
Experimentally demonstrated Yes

Stimulators :

Shine-Dalgarno sequence :
Secondary structure :

Recoding motif :

Protein section

ORF number : 3

ORF 1

Length		Begin	End	Strand	Fusion ORF
360 bp	119 aa	63	422	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MSNLFWLTDAQMARLEPFFPKSHGKPRVDDRRVLSGIIFINRNGLRWRDAPREYGPPKTLYNRWKRWSDKGVFARMMDGLAAEAAVPKTVMIDATYLKAH
RTATSLRSKKGGQATRGAV

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
565 bp	187 aa	268	832	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

QRGLRPDDGWLGGRGRCSEDGDDRRDLSQGAPHGDQPAVEKGGPGDQRGRLIGRTKGGMNTKLHAVTDADGRLIRFFMTAGQVSDYTGAAALLGSLPKAE
WLLADRGDDADWFREALKDNGIKPCIPGRRSRGKPIKHDKRRYKRRNRIEIMFGRLKDWRRIATRYDRCPKVFLSAVALAATVMFWL

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
770 bp	256 aa	63	832	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MSNLFWLTDAQMARLEPFFPKSHGKPRVDDRRVLSGIIFINRNGLRWRDAPREYGPPKTLYNRWKRWSDKGVFARMMDGLAAEAAVPKTVMIDATYLKAH
RTATSLRSKKGGPGDQRGRLIGRTKGGMNTKLHAVTDADGRLIRFFMTAGQVSDYTGAAALLGSLPKAEWLLADRGDDADWFREALKDNGIKPCIPGRRS
RGKPIKHDKRRYKRRNRIEIMFGRLKDWRRIATRYDRCPKVFLSAVALAATVMFWL

Blast result :

Comments

97% aa similar to ISPak1.
ISPye24 was identified by in silico nucleotide sequence analysis of Paracoccus yeei strains: CCUG 32053 and FDAARGOS_252. IN FDAARGOS_252 there are 3 reconstructed copies (isoforms of ISPye24) disrupted by insertion of another IS into the IR (in the same position) - possibly a mosaic transposable element.
The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] Chmielowska C., Szuplewska M., Bartosik D. (2018) Direct submission.
2] Goldberg,B., Campos,J., Tallon,L., Sadzewicz,L., Sengamalay,N., Ott,S., Godinez,A., Nagaraj,S., Vavikolanu,K., Aluvathingal,J., Nadendla,S. and Sichtig,H. (2017) Direct GenBank submission.