ISHaha4

  • Family IS3
  • Group IS150
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
HE717023 ND Halobacillus halophilus
Halobacillus halophilus DSM 2266
DNA section
IS Length : 1271 bp

Ends


IR Length : 30/38

IRL : TAGAGTGACCTAGAAAAATGAGACGTAATAAAACACCTTCAAAGTTGTAA
IRR : TGGAGTGCCACAGTAAAATAAGACTCAATAAAACACCTAGGCTGCCATTA

Insertion site


Left flankDirect repeatRight flankDR Length
CACATGGTCTATTCCATGTGGAC3
CGGTTCCTCATGAAGGAATCCGGG4
TCCCTAATGTTTATAAACATCAGG4
CCTCGTGTCAGCTCATGCACACGA4
ACCCTCTACTTATAAAAGTAGAG3
TCCTTCTGAGGTA/GTGAACACAAAGG7

DNA sequence

TAGAGTGACCTAGAAAAATGAGACGTAATAAAACACCTTCAAAGTTGTAATACTACACTTGGAGGTGTTTTTCTTATGGGTAAAAAAGTTCACTATCCCG
AAGAAGTAAAAAAGAAAGTAGTTCAATTAAAATTAGAAGGGAATCACACGAATCAAGAGTTGATGGACATGTTTGGAATTAAGAATAAGTCCCAGATTAA
AACGTGGATGAAATGGTTTAGAAATGGGGAAAACCACCGGTTTGCTCAGCCTATAGGGAAACAATATTCTCACGGGAAAGGGCCGGAAGACGAGGATGAA
ATGACCCAACTGAAGAAAAAGATTGCCTATTATGATATGAGAGAAGAACTGTTGGAAAAGTACCAGGAAATCGAAAGGAAGTGGTTCCAGAAGTATTCAT
CCAAATCGTAGAAACATTTAAGCACAAGTATCCTGTGAAAGATATTTGTGAATGCTTTGGTATAGCTAAAGCCACCTATTATCGCTGGCGGGGAAAGTCA
TGGGGACCGTCGGTCCTGGAGAAGAAGATCATTGAGCTATGTGAAGATCTAAAATTTAGAGTGGGACACCGTATGGTCCGTGACCTCTTACGTAAGGAAT
ACCAAATCAAACTCAATCGAAATACCGTTCAAAAAATCATGCAGAAATACCATATTCAATGTCGCGTAAAACCAAAGAGACAGTGTTATATCGCAGGGGA
AAGTAAGATTGTGGTACCGAATTATTTAGAGAGAAACTTTACGTCTACGAGACCTAATGAAAAATGGGTAACAGATATTACCTATCTTCCTTACGGAGAG
AAAATGTTATATTTATCAACGATTATGGACTTATACAACAACGAAATCCTCGCGTACACGATCAGTGATAAACAAGATACGTCCTTCGTATTAGATACGT
TGAGGAAAGCTTGCGAAGGACGTGACGTCTATGAAGTGATCCTTCATAGCGATCAAGGTTCGCAGTACACGTCCTATGAATTTCAAGAAGAGGCCAAAAA
AAGAGGCATTATCACAAGCATGTCCCGACGGGGGAACTGCTTTGATAATGCCGTCATCGAATCCTTCCACTCCACGATAAAATCGGAAGAATTCAGTCCT
CTGGACCGAGGAAAAATAGATCATCATACCGTACGCTCAAAAATCGATACGTACATGTATTACTACAATTATTGTCGACCTTTTCAAAAACTAAACTGCC
AAACTCCAATTGAATTCAGAGTAATGGCAGCCTAGGTGTTTTATTGAGTCTTATTTTACTGTGGCACTCCA
Recoding section
  • Recoding by frameshift
  • Frame
  • Type
  • Experimentally demonstrated

Stimulators :

  • Shine-Dalgarno sequence :
  • Secondary structure :

Recoding motif :

Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
336 bp111 aa76411+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MGKKVHYPEEVKKKVVQLKLEGNHTNQELMDMFGIKNKSQIKTWMKWFRNGENHRFAQPIGKQYSHGKGPEDEDEMTQLKKKIAYYDMREELLEKYQEIE
RKWFQKYSSKS

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
900 bp299 aa3361235+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

YERRTVGKVPGNRKEVVPEVFIQIVETFKHKYPVKDICECFGIAKATYYRWRGKSWGPSVLEKKIIELCEDLKFRVGHRMVRDLLRKEYQIKLNRNTVQK
IMQKYHIQCRVKPKRQCYIAGESKIVVPNYLERNFTSTRPNEKWVTDITYLPYGEKMLYLSTIMDLYNNEILAYTISDKQDTSFVLDTLRKACEGRDVYE
VILHSDQGSQYTSYEFQEEAKKRGIITSMSRRGNCFDNAVIESFHSTIKSEEFSPLDRGKIDHHTVRSKIDTYMYYYNYCRPFQKLNCQTPIEFRVMAA

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1160 bp386 aa761235+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MGKKVHYPEEVKKKVVQLKLEGNHTNQELMDMFGIKNKSQIKTWMKWFRNGENHRFAQPIGKQYSHGKGPEDEDEMTQLKKKIAYYDMREELLEKVPGNR
KEVVPEVFIQIVETFKHKYPVKDICECFGIAKATYYRWRGKSWGPSVLEKKIIELCEDLKFRVGHRMVRDLLRKEYQIKLNRNTVQKIMQKYHIQCRVKP
KRQCYIAGESKIVVPNYLERNFTSTRPNEKWVTDITYLPYGEKMLYLSTIMDLYNNEILAYTISDKQDTSFVLDTLRKACEGRDVYEVILHSDQGSQYTS
YEFQEEAKKRGIITSMSRRGNCFDNAVIESFHSTIKSEEFSPLDRGKIDHHTVRSKIDTYMYYYNYCRPFQKLNCQTPIEFRVMAA

 

Blast result :
Comments
ISHaha4 is 66% aa similar to ISErh1.
The third ORF is a ORFAB transposase reconstructed to represent a probable -1 ribosome slippage.
References
1] Saum S.H., Pfeiffer F., Palm P., Rampp M., Schuster S.C., Müller V., and Oesterhelt D. (2013) Environ. Microbiol. 15 (5), 1619-1633.