From AureoWiki
Jump to: navigation, search
Pangenome04-0298108BA0217611819-9771193COLECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159LGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50N315NCTC8325NewmanRF122ST398T0131TCH60TW20USA300_FPR3757USA300_TCH1516VC40

Summary[edit source | edit]

  • pan ID?: SAUPAN003651000
  • symbol?:
  • description?: pseudogene

      descriptions from strain specific annotations:

    • pseudogene
    • putative phage head morphogenesis protein
  • strand?: +
  • coordinates?: 3975493..3979210
  • synteny block?: BlockID0027200
  • occurrence?: in 31% of 32 strains

Orthologs[edit source | edit]

    COL:
    N315:
    NCTC8325:
    Newman:
    USA300_FPR3757:
    04-02981:
    08BA02176:
    11819-97:
    71193:
    ECT-R 2:
    ED133:
    ED98:
    HO 5096 0412:
    SAEMRSA15_11490b (SAEMRSA15_11490)
    JH1:
    JH9:
    JKD6008:
    SAA6008_01270
    JKD6159:
    LGA251:
    M013:
    MRSA252:
    MSHR1132:
    MSSA476:
    Mu3:
    Mu50:
    MW2:
    RF122:
    ST398:
    T0131:
    SAT0131_01372
    TCH60:
    TW20:
    SATW20_13080
    USA300_TCH1516:
    USA300HOU_1249
    VC40:
    SAVC_05770

Genome Viewer[edit source | edit]

COL chromosome
NCTC8325 chromosome
Newman chromosome
USA300_FPR3757 chromosome

Alignments[edit source | edit]

  • alignment of orthologues:
    CLUSTAL format alignment by MAFFT L-INS-i (v7.205)


    COL             -----------------------------------------------------MIPGVNA
    NCTC8325        MLFSLFVEKEESQKLTYLKELGEDGEYKYVAKIDSKTSKLCHSLNGKIFKVKDMIPGVNA
    Newman          MLFSLFVEKEESQKLTYLKELGEDGEYKYVAKIDSKTSKLCHSLNGKIFKVKDMIPGVNA
    USA300_FPR3757  MLFSLFVEKEESQKLTYLKELGEDGEYKYVAKIDSKTSKLCHSLNGKIFKVKDMIPGVNA
                                                                         *******

    COL             PPMHPWCRSTTVPHVGNWRDKFFKEREGKYQVEGCFIESGALNNKSDEYGIKRNRHAQIY
    NCTC8325        PPMHPWCRSTTVPHVGNWRDKFFKEREGKYQVEGCFIESGALNNKSDEYGIKRNRHAQIY
    Newman          PPMHPWCRSTTVPHVGNWRDKFFKEREGKYQVEGCFIESGALNNKSDEYGIKRNRHAQIY
    USA300_FPR3757  PPMHPWCRSTTVPHVGNWRDKFFKEREGKYQVEGCFIESGALNNKSDEYGIKRNRHAQIY
                    ************************************************************

    COL             YNSVRNRDKQIEISKIAKNTNINKNLIQRVYEHIFENKYLLESGFKQFDPDFYMAQSWQR
    NCTC8325        YNSVRNRDKQIEISKIAKNTNINKNLIQRVYEHIFENKYLLESGFKQFDPDFYMAQSWQR
    Newman          YNSVRNRDKQIEISKIAKNTNINKNLIQRVYEHIFENKYLLESGFKQFDPDFYMAQSWQR
    USA300_FPR3757  YNSVRNRDKQIEISKIAKNTNINKNLIQRVYEHIFENKYLLESGFKQFDPDFYMAQSWQR
                    ************************************************************

    COL             LREGKNIKKMDIIM
    NCTC8325        LREGKNIKKMDIIM
    Newman          LREGKNIKKMDIIM
    USA300_FPR3757  LREGKNIKKMDIIM
                    **************