Table 1 The SCCmec/SCCfus composite element in M58.
Gene ID | Explanation | Position in SCC (nt) | Position in genome (nt) | Length (nt) | Direction | Sequence identical to |
|---|---|---|---|---|---|---|
orfX | (23S rRNA methyltransferase) | 33,698–34,177 | 480 | Forward | ||
sRNA6 | (Antisense RNA associated with orfX) | 33,878–34,161 | 284 | |||
DR_SCC | Direct repeat of SCC | 1–19 | 34,159–34,177 | 19 | ||
dcs-L1 | Downstream constant segment, locus 1 | 20–301 | 34,178–34,459 | 282 | MW2, BA000033 [34169:34450] | |
Q9XB68-dcs | Putative protein | 302–1596 | 34,460–35,754 | 1295 | Forward | Strain 21172, AFEF01000013 [388744:390039] |
Q7A213 | Putative protein | 2011–2250 | 36,169–36,408 | 240 | Forward | COL, CP000046 [36082:36321]) and MW2, BA000033 [36161:36400]) |
IR_IS431 | Inverted repeat of IS431 | 2223–2238 | 36,381–36,396 | 16 | COL, CP000046 [36294:36309] and MW2, BA000033 [36373:36388] | |
tnpIS431 | Transposase for IS431 | 2282–2956 | 36,440–37,114 | 675 | Reverse (trunc.) | COL, CP000046 [36353:37027] |
Teg143 | Trans-encoded RNA associated with tnpIS431 | 2987–3020 | 37,145–37,178 | 34 | COL, CP000046 [37058:37091] and MW2, BA000033 [37137:37170] | |
IR_IS431 | Inverted repeat of IS431 | 2997–3012 | 37,155–37,170 | 16 | COL, CP000046 [37058:37091] and MW2, BA000033 [37137:37170] | |
mvaS-SCC | Truncated 3-hydroxy-3-methylglutaryl CoA synthase | 3029–3381 | 37,187–37,539 | 353 | Forward | COL, CP000046 [37100:37452] and MW2, BA000033 [37179:37531] |
Q5HJW6 | Putative protein | 3479–3709 | 37,637–37,867 | 231 | Forward | COL, CP000046 [37550:37780] and MW2, BA000033 [37629:37859] |
dru | SCC direct repeat units | 3619–4056 | 37,777–38,214 | 438 | COL, CP000046 [37690:38127] | |
ugpQ | Glycerophosphoryl diester phosphodiesterase | 4258–5001 | 38,416–39,159 | 744 | Forward | COL, CP000046 [38329:39072] and MW2, BA000033 [38288:39031] |
ydeM | Putative dehydratase | 5098–5526 | 39,256–39,684 | 429 | Forward | COL, CP000046 [39169:39597] and MW2, BA000033 [39128:39556] |
txbi_mecA | Bidirectional rho-independent terminator of mecA | 5517–5581 | 39,675–39,739 | 65 | ||
mecA | Penicillin binding protein 2a | 5572–7578 | 39,730–41,736 | 2007 | Reverse | MW2, BA000033.2 [39602:41608] |
mecR1-trunc | Methicillin resistance operon repressor 1, truncated as in SCCmec I, IV, V | 7678–8652 | 41,836–42,810 | 975 | Forward (trunc.) | |
hsdR2-IS1272 | Fragment of type I restriction-modification system endonuclease | 8653–8886 | 42,811–43,044 | 234 | Truncated | COL, CP000046 [42724:42957] and MW2, BA000033 [42683:42916] |
tnpIS1272 | Transposase for IS1272 | 8887–10,410 | 43,045–44,568 | 1524 | Reverse | COL, CP000046 [42958:44481] and MW2, BA000033 [42917:44440] |
Q9KX75 | Putative protein | 10,546–11,052 | 44,704–45,210 | 507 | Reverse | |
Q7A207 | Putative protein | 11,068–11,379 | 45,226–45,537 | 312 | Reverse | 06BA18369, ARXY01000001 [134883:135194] |
Q7A206 | Putative protein | 11,466–11,816 | 45,624–45,974 | 351 | Reverse | 06BA18369, ARXY01000001 [135281:135631] |
ccrB-1 | Cassette chromosome recombinase B, type 1 | 12,282–13,907 | 46,440–48,065 | 1626 | Reverse | |
ccrA-1 | Cassette chromosome recombinase A, type 1 | 13,929–15,278 | 48,087–49,436 | 1350 | Reverse | 06BA18369, ARXY01000001 [137744:139093] |
cch-1 | Cassette chromosome helicase | 15,466–17,235 | 49,624–51,393 | 1770 | Reverse | CMFT532, HF569114 [8453:10222] |
DUF1413-06BA18369 | Putative protein associated with cch | 17,235–17,525 | 51,393–51,683 | 291 | Reverse | 06BA18369, ARXY01000001 [141050:141340] |
Q83ZD5 | Putative protein | 17,696–18,769 | 51,854–52,927 | 1074 | Forward | 06BA18369, ARXY01000001 [141511:142584] |
Helicase M06 | DEAD/DEAH box helicase domain protein | 18,863–20,803 | 53,021–54,961 | 1941 | Forward | 06BA18369, ARXY01000001 [142678:144618] |
Q6GD51 | Putative protein | 21,060–21,368 | 55,218–55,526 | 309 | Forward | 06BA18369, ARXY01000001 [144875:145183] |
D3QFP0-SCC | Putative lipase/protease | 21,415–21,653 | 55,573–55,811 | 239 | Reverse (trunc.) | 06BA18369, ARXY01000001 [145230:145468] and MSSA476, BX571857 [52281:52519] |
D3JCW9 | Putative protein | 21,478–21,636 | 55,636–55,794 | 159 | Forward | 06BA18369, ARXY01000001 [145293:145451] and MSSA476, BX571857 [52344:52502] |
fusC | Fusidic acid resistance protein C | 21,954–22,592 | 56,112–56,750 | 639 | Forward | 06BA18369, ARXY01000001 [145769:146407] and MSSA476, BX571857 [52820:53458] |
tnpIS150 | Transposase of IS150 | 23,068–23,382 | 57,226–57,540 | 315 | Forward | CMFT463, HF569110 [16043:16357] |
tnp A8YYY6 | Transposase | 23,394–24,209 | 57,552–58,367 | 816 | Forward (trunc.) | |
Q4LAG7-SCCfus | Putative protein | 24,356–24,784 | 58,514–58,942 | 429 | Reverse | 06BA18369, ARXY01000001 [148171:148599] |
yobV | Transcriptional regulator | 24,864–25,793 | 59,022–59,951 | 930 | Forward | 06BA18369, ARXY01000001 [148679:149608] |
DR_SCC | Direct repeat of SCC | 25,890–25,908 | 60,048–60,066 | 19 |
