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rs254947226 SNP Detail
Summary
  • ID
    rs254947226
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr3:93352874 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                CACCAACGGG AAGCCAGAAG
ACGAGATGAG ACGTTCCAGG AGGAAGAACA GCTCCAGGGA GAATCGAGAA GACGGCAACA
GGAGAGAGAG GGCAAGTTCC TTGAGGAGGA AAGGCAGCTG CGGACAGAAC GGGAAGAGCA
GAGGCGGCGT CAAGAACAAG AGAGAGAATT CCAAGAGGAG GAGGAGCACC TCCAAGAACG
Y
GAGAAAGAAC TTCGGCAGGA ATGCGACAGA AAATCTCGTG AACAAGAGCG CCGCCAGCAG
CGTGAGGAAG AGCAGCTGAG GCGTCAGGAG CGGGACCAGA GATTCCGTCG GGAACAAGAA
CGCCACCTGG AACGTGAGGA AGAGCAGCTG CGGGACAGAC CATCCCGCCG GGAACAAGAA
CGCCACCAGG AACGTGAGGA                                            

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
ss358876338 MGP_WTSI_3_93249489 EVA_MGPV3 EVA_MGPV3 f SNP C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C T C C C C
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
rs254947226 SNP C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C T C C C C
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
ss358876338 MGP_WTSI_3_93249489 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr3:93352874 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Cpgi13475 CpG island 13475 within coordinates
Gm37245 predicted gene, 37245 within coordinates
Gm56800 predicted gene, 56800 773 bp upstream
Gm66249 predicted gene, 66249 within coordinates
Tchh trichohyalin within coordinates
Tssr961 transcription start site region 961 1561 bp downstream
Tssr962 transcription start site region 962 441 bp downstream
Tssr963 transcription start site region 963 405 bp downstream
Tssr964 transcription start site region 964 306 bp downstream
Tssr30351 transcription start site region 30351 1994 bp downstream
Tssr30352 transcription start site region 30352 1944 bp downstream
Tssr30353 transcription start site region 30353 1925 bp downstream
Tssr30354 transcription start site region 30354 1910 bp downstream
Tssr30355 transcription start site region 30355 1891 bp downstream
Tssr30356 transcription start site region 30356 1837 bp downstream
Tssr30357 transcription start site region 30357 1782 bp downstream
Tssr30358 transcription start site region 30358 1664 bp downstream
Tssr30359 transcription start site region 30359 1638 bp downstream
Tssr30360 transcription start site region 30360 1608 bp downstream
Tssr30361 transcription start site region 30361 1283 bp downstream
Tssr30362 transcription start site region 30362 1267 bp downstream
Tssr30363 transcription start site region 30363 1125 bp downstream
Tssr30364 transcription start site region 30364 1053 bp downstream
Tssr30365 transcription start site region 30365 1018 bp downstream
Tssr30366 transcription start site region 30366 965 bp downstream
Tssr30367 transcription start site region 30367 926 bp downstream
Tssr30368 transcription start site region 30368 902 bp downstream
Tssr30369 transcription start site region 30369 898 bp downstream
Tssr30370 transcription start site region 30370 889 bp downstream
Tssr30371 transcription start site region 30371 862 bp downstream
Tssr30372 transcription start site region 30372 852 bp downstream
Tssr30373 transcription start site region 30373 799 bp downstream
Tssr30374 transcription start site region 30374 785 bp downstream
Tssr30375 transcription start site region 30375 772 bp downstream
Tssr30376 transcription start site region 30376 736 bp downstream
Tssr30377 transcription start site region 30377 710 bp downstream
Tssr30378 transcription start site region 30378 688 bp downstream
Tssr30379 transcription start site region 30379 671 bp downstream
Tssr30380 transcription start site region 30380 592 bp downstream
Tssr30381 transcription start site region 30381 575 bp downstream
Tssr30382 transcription start site region 30382 520 bp downstream
Tssr30383 transcription start site region 30383 509 bp downstream
Tssr30384 transcription start site region 30384 500 bp downstream
Tssr30385 transcription start site region 30385 475 bp downstream
Tssr30386 transcription start site region 30386 453 bp downstream
Tssr30387 transcription start site region 30387 359 bp downstream
Tssr30388 transcription start site region 30388 340 bp downstream
Tssr30389 transcription start site region 30389 318 bp downstream
Tssr30390 transcription start site region 30390 247 bp downstream
Tssr30391 transcription start site region 30391 237 bp downstream
Tssr30392 transcription start site region 30392 219 bp downstream
Tssr30393 transcription start site region 30393 208 bp downstream
Tssr30394 transcription start site region 30394 182 bp downstream
Tssr30395 transcription start site region 30395 155 bp downstream
Tssr30396 transcription start site region 30396 105 bp downstream
Tssr30397 transcription start site region 30397 89 bp downstream
Tssr30398 transcription start site region 30398 11 bp downstream
Tssr30399 transcription start site region 30399 24 bp upstream
Tssr30400 transcription start site region 30400 509 bp upstream
Tssr30401 transcription start site region 30401 529 bp upstream
Tssr30402 transcription start site region 30402 628 bp upstream
Tssr30403 transcription start site region 30403 668 bp upstream
Tssr30404 transcription start site region 30404 1806 bp upstream
Tssr30405 transcription start site region 30405 1917 bp upstream
Tssr34352 transcription start site region 34352 1683 bp upstream
Tssr34353 transcription start site region 34353 1677 bp upstream
Tssr34354 transcription start site region 34354 1626 bp upstream
Tssr34355 transcription start site region 34355 1529 bp upstream
Tssr34356 transcription start site region 34356 848 bp upstream
Tssr34357 transcription start site region 34357 783 bp upstream
Tssr34358 transcription start site region 34358 724 bp upstream
Tssr34359 transcription start site region 34359 649 bp upstream
Tssr34360 transcription start site region 34360 604 bp upstream
Tssr34361 transcription start site region 34361 547 bp upstream
Tssr34362 transcription start site region 34362 534 bp upstream
Tssr34363 transcription start site region 34363 509 bp upstream
Tssr34364 transcription start site region 34364 494 bp upstream
Tssr34365 transcription start site region 34365 468 bp upstream
Tssr34366 transcription start site region 34366 400 bp upstream
Tssr34367 transcription start site region 34367 235 bp upstream
Tssr34368 transcription start site region 34368 205 bp upstream
Tssr34369 transcription start site region 34369 179 bp upstream
Tssr34370 transcription start site region 34370 153 bp upstream
Tssr34371 transcription start site region 34371 10 bp upstream
Tssr34372 transcription start site region 34372 641 bp downstream
Tssr34373 transcription start site region 34373 1809 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
12/17/2024
MGI 6.24 		The Jackson Laboratory