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rs254305553 SNP Detail
Summary
  • ID
    rs254305553
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr11:94840920 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                CTTGGTCTTA CAGAACCTTT
GACCTTCCCA CCCGTGCCCC CTTGCAAACC TGGCCATAGG AACTAGTTGA GGGCACCCTC
TGAGAGACAG AAGCAGAGAC TGGGCGGAGC CAGCAGTGGG GGGAGGGGAA ACACTTCTGA
GCCGGAGTTT GGGGGCTGCC TTGAGTTTCT AGCCACTTTT TCTAACCATC TCTCTATCCC
Y
AGGGTCCCCC TGGCTCTGCT GGTTCTCCTG GCAAAGACGG ACTCAACGGT CTCCCTGGCC
CCATTGGTCC CCCTGGTCCT CGAGGTCGCA CTGGTGACAG CGGCCCTGCT GTATGTAGCC
CCACATCCTC TGCCTCATGA CCCTCCCCCA AGAAGACTTG AATACCTGGA AACCTTGATC
TCCTTCCTCT ACACAGGGTC                                            

Y = C/T

    Note: Sequence in lower case indicates low-complexity or repetitive sequence
    BLAST SNP flanking sequence against the mouse Genome
SNP Assays
and
SNP Consensus
Strain alleles of submitted assays, and consensus values for this SNP
Legend
Assay ID Submitter
SNP ID		 Submitter
Handle		 Population
ss orientation
 Variation Type
129P2/OlaHsd
129S1/SvImJ
129S5/SvEvBrd
A/J
AKR/J
B10.RIII-H2 H2-T18/(71NS)SnJ
BALB/cByJ
BALB/cJ
BTBR T<+> Itpr3/J
BUB/BnJ
C3H/HeH
C3H/HeJ
C57BL/6J
C57BL/6NJ
C57BL/10J
C57BL/10SnJ
C57BR/cdJ
C57L/J
C58/J
CAST/EiJ
CBA/J
CE/J
CZECHII/EiJ
DBA/1J
DBA/2J
FVB/NJ
I/LnJ
JF1/MsJ
KK/HlJ
LEWES/EiJ
LG/J
LP/J
MA/MyJ
MOLF/EiJ
NOD/ShiLtJ
NON/ShiLtJ
NZB/BlNJ
NZO/HlLtJ
NZW/LacJ
PL/J
PWK/PhJ
QSi3/Ianm
QSi5/Ianm
RF/J
RIIIS/J
SEA/GnJ
SJL/J
SM/J
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
ss384336254 MGP_WTSI_11_94811408 EVA_MGPV3 EVA_MGPV3 f SNP T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T C T T T T
SNP Consensus Information
SNP Consensus Type
129P2/OlaHsd
129S1/SvImJ
129S5/SvEvBrd
A/J
AKR/J
B10.RIII-H2 H2-T18/(71NS)SnJ
BALB/cByJ
BALB/cJ
BTBR T<+> Itpr3/J
BUB/BnJ
C3H/HeH
C3H/HeJ
C57BL/6J
C57BL/6NJ
C57BL/10J
C57BL/10SnJ
C57BR/cdJ
C57L/J
C58/J
CAST/EiJ
CBA/J
CE/J
CZECHII/EiJ
DBA/1J
DBA/2J
FVB/NJ
I/LnJ
JF1/MsJ
KK/HlJ
LEWES/EiJ
LG/J
LP/J
MA/MyJ
MOLF/EiJ
NOD/ShiLtJ
NON/ShiLtJ
NZB/BlNJ
NZO/HlLtJ
NZW/LacJ
PL/J
PWK/PhJ
QSi3/Ianm
QSi5/Ianm
RF/J
RIIIS/J
SEA/GnJ
SJL/J
SM/J
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
rs254305553 SNP T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T C T T T T
Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter
Assay ID Submitter
SNP ID		 Submitter
Handle		 Population
ss orientation
 Variation
Type		 Alleles
ss384336254 MGP_WTSI_11_94811408 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr11:94840920 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Col1a1 collagen, type I, alpha 1 within coordinates
Tssr3647 transcription start site region 3647 1887 bp upstream
Tssr104256 transcription start site region 104256 1740 bp downstream
Tssr104257 transcription start site region 104257 1706 bp downstream
Tssr104258 transcription start site region 104258 1523 bp downstream
Tssr104259 transcription start site region 104259 1361 bp downstream
Tssr104260 transcription start site region 104260 1309 bp downstream
Tssr104261 transcription start site region 104261 660 bp downstream
Tssr104262 transcription start site region 104262 within coordinates
Tssr104263 transcription start site region 104263 192 bp upstream
Tssr104264 transcription start site region 104264 216 bp upstream
Tssr104265 transcription start site region 104265 241 bp upstream
Tssr104266 transcription start site region 104266 263 bp upstream
Tssr104267 transcription start site region 104267 294 bp upstream
Tssr104268 transcription start site region 104268 344 bp upstream
Tssr104269 transcription start site region 104269 378 bp upstream
Tssr104270 transcription start site region 104270 387 bp upstream
Tssr104271 transcription start site region 104271 403 bp upstream
Tssr104272 transcription start site region 104272 609 bp upstream
Tssr104273 transcription start site region 104273 655 bp upstream
Tssr104274 transcription start site region 104274 755 bp upstream
Tssr104275 transcription start site region 104275 767 bp upstream
Tssr104276 transcription start site region 104276 777 bp upstream
Tssr104277 transcription start site region 104277 1011 bp upstream
Tssr104278 transcription start site region 104278 1063 bp upstream
Tssr104279 transcription start site region 104279 1080 bp upstream
Tssr104280 transcription start site region 104280 1135 bp upstream
Tssr104281 transcription start site region 104281 1149 bp upstream
Tssr104282 transcription start site region 104282 1195 bp upstream
Tssr104283 transcription start site region 104283 1367 bp upstream
Tssr104284 transcription start site region 104284 1392 bp upstream
Tssr104285 transcription start site region 104285 1461 bp upstream
Tssr104286 transcription start site region 104286 1483 bp upstream
Tssr104287 transcription start site region 104287 1510 bp upstream
Tssr104288 transcription start site region 104288 1532 bp upstream
Tssr104289 transcription start site region 104289 1573 bp upstream
Tssr104290 transcription start site region 104290 1619 bp upstream
Tssr104291 transcription start site region 104291 1628 bp upstream
Tssr104292 transcription start site region 104292 1666 bp upstream
Tssr104293 transcription start site region 104293 1814 bp upstream
Tssr104294 transcription start site region 104294 1851 bp upstream
Tssr104295 transcription start site region 104295 1909 bp upstream
Tssr104296 transcription start site region 104296 1928 bp upstream
Tssr104297 transcription start site region 104297 1961 bp upstream
Tssr104298 transcription start site region 104298 1999 bp upstream
Tssr110222 transcription start site region 110222 748 bp downstream
Tssr110223 transcription start site region 110223 1117 bp downstream
Tssr110224 transcription start site region 110224 1202 bp downstream
Tssr110225 transcription start site region 110225 1415 bp downstream
Tssr110226 transcription start site region 110226 1448 bp downstream
Tssr110227 transcription start site region 110227 1487 bp downstream
Tssr110228 transcription start site region 110228 1499 bp downstream
Tssr110229 transcription start site region 110229 1559 bp downstream
Tssr110230 transcription start site region 110230 1590 bp downstream
Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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Send questions and comments to User Support. 		last database update
12/10/2024
MGI 6.24 		The Jackson Laboratory