PangenomeCOLN315NCTC8325NewmanUSA300_FPR3757JSNZ04-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159LGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

⊟Summary

• pan ID^?: SAUPAN004505000
• symbol^?: tnp2
• synonym:
• description^?: IS200/IS605 family transposase

  descriptions from strain specific annotations:

  • IS200/IS605 family transposase
  • IS200 family transposase
  • IS200 family transposase, putative
  • putative transposase
  • transposase
  • IS605/IS200-like transposase
• strand^?: -
• coordinates^?: 4736384..4736785
• synteny block^?: BlockID0034960
• occurrence^?: in 29% of 34 strains

⊟Additional information (user-provided)

ψ tnp_Sep3 : degenerate ISSep3 family transposase pseudogene [1]

Staphylococci contain several degenerate insertion sequences that are no longer likely to be functional. This Sep3 family transposase pseudogene contains a premature TAY→TAA stop codon at position 17 that is unlikely to be avoided by frame-slipping or other bypass mechanisms. Unlike other degenerate ISSep3 family transposase pseudogenes in staph, this version maintains the full coding sequence in a single frame.

⊟Orthologs

COL:
SACOL1839
N315:
—
NCTC8325:
SAOUHSC_01911
Newman:
NWMN_1682 (tnp)
USA300_FPR3757:
SAUSA300_1732
JSNZ:
—
04-02981:
—
08BA02176:
—
11819-97:
—
6850:
RSAU_002142
71193:
—
ECT-R 2:
—
ED133:
—
ED98:
—
HO 5096 0412:
—
JH1:
—
JH9:
—
JKD6008:
SAA6008_01767
JKD6159:
—
LGA251:
—
M013:
—
MRSA252:
—
MSHR1132:
—
MSSA476:
—
Mu3:
—
Mu50:
—
MW2:
—
RF122:
—
ST398:
—
T0131:
SAT0131_01907
TCH60:
—
TW20:
SATW20_17810
USA300_TCH1516:
USA300HOU_1779
VC40:
SAVC_08170

⊟Genome Viewer

COL
NCTC8325
Newman
USA300_FPR3757

⊟Alignments

• alignment of orthologues:
  CLUSTAL format alignment by MAFFT L-INS-i (v7.505)
  
  
  COL             MSSDTNSLAHTKWNCKYHIVFAPKYRRQVIYGKIKKDIGIILRQLCERKGVEIIEAEACK
  NCTC8325        MSSDTNSLAHTKWNCKYHIVFAPKYRRQVIYGKIKKDIGIILRQLCERKGVEIIEAEACK
  Newman          MSSDTNSLAHTKWNCKYHIVFAPKYRRQVIYGKIKKDIGIILRQLCERKGVEIIEAEACK
  USA300_FPR3757  ----------------------------MIYGKIKKDIGIILRQLCERKGVEIIEAEACK
                                              :*******************************
  
  COL             DHIHMLVSIPPKLGVSSFVGYLKGKSSLMIFDRHANLKYRYGNRKFWCKGFYVDTVGRNK
  NCTC8325        DHIHMLVSIPPKLGVSSFVGYLKGKSSLMIFDRHANLKYRYGNRKFWCKGFYVDTVGRNK
  Newman          DHIHMLVSIPPKLGVSSFVGYLKGKSSLMIFDRHANLKYRYGNRKFWCKGFYVDTVGRNK
  USA300_FPR3757  DHIHMLVSIPPKLGVSSFVGYLKGKSSLMIFDRHANLKYRYGNRKFWCKGFYVDTVGRNK
                  ************************************************************
  
  COL             KVIENYIRNQLQEDIVADQISMEEYLDPFTGEKNKKRKKKE
  NCTC8325        KVIENYIRNQLQEDIVADQISMEEYLDPFTGEKNKKRKKKE
  Newman          KVIENYIRNQLQEDIVADQISMEEYLDPFTGEKNKKRKKKE
  USA300_FPR3757  KVIENYIRNQLQEDIVADQISMEEYLDPFTGEKNKKRKKKE
                  *****************************************
  

⊟Literature