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rs261923040 SNP Detail
Summary
  • ID
    rs261923040
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr3:93350573 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                ATATTTTCTT TGCTTTTTAA
AAAGATTTAT TTATTTATTT TATATGTGAG TACACTGTCG ATCCCTTTAG ACACACCAGA
AGAGAGCATC AGATCCCATT ACAGATGGGG TTGTGAGCCA CCATGTGGTT GCTGGGAATT
GAACTCAGGA CTTATGGAAG AGCAGTCAAG TGCTCTTAGC GGCTAAACCA TCTCTCCAGC
Y
CCTCTGTGCA TTTTCTAATC GCTCCAAATA GTCCCCTCCC CAAAACAAAC GTGAGTGCAA
AAGTTTACTA CTTGTAAATA ATTAATTATA AAACTTTTTT GTTTGTTTGT TTTAATCTTT
TCATAGAGAC CACATGACCC TGAGACGATA GACCTGACCC TAGAACTTCT GGATCGCGAC
TGCAACGGGC GTGTTGATTT                                            

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
ss358876304 MGP_WTSI_3_93247188 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
rs261923040 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
ss358876304 MGP_WTSI_3_93247188 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr3:93350573 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Cpgi13475 CpG island 13475 259 bp proximal
Gm37245 predicted gene, 37245 within coordinates
Gm56800 predicted gene, 56800 within coordinates
Gm66249 predicted gene, 66249 within coordinates
Tchh trichohyalin within coordinates
Tssr960 transcription start site region 960 161 bp upstream
Tssr961 transcription start site region 961 737 bp upstream
Tssr962 transcription start site region 962 1857 bp upstream
Tssr963 transcription start site region 963 1894 bp upstream
Tssr964 transcription start site region 964 1990 bp upstream
Tssr30345 transcription start site region 30345 877 bp downstream
Tssr30346 transcription start site region 30346 852 bp downstream
Tssr30347 transcription start site region 30347 185 bp upstream
Tssr30348 transcription start site region 30348 224 bp upstream
Tssr30349 transcription start site region 30349 230 bp upstream
Tssr30350 transcription start site region 30350 272 bp upstream
Tssr30351 transcription start site region 30351 303 bp upstream
Tssr30352 transcription start site region 30352 352 bp upstream
Tssr30353 transcription start site region 30353 364 bp upstream
Tssr30354 transcription start site region 30354 382 bp upstream
Tssr30355 transcription start site region 30355 401 bp upstream
Tssr30356 transcription start site region 30356 414 bp upstream
Tssr30357 transcription start site region 30357 512 bp upstream
Tssr30358 transcription start site region 30358 627 bp upstream
Tssr30359 transcription start site region 30359 656 bp upstream
Tssr30360 transcription start site region 30360 686 bp upstream
Tssr30361 transcription start site region 30361 1011 bp upstream
Tssr30362 transcription start site region 30362 1025 bp upstream
Tssr30363 transcription start site region 30363 1168 bp upstream
Tssr30364 transcription start site region 30364 1239 bp upstream
Tssr30365 transcription start site region 30365 1274 bp upstream
Tssr30366 transcription start site region 30366 1326 bp upstream
Tssr30367 transcription start site region 30367 1370 bp upstream
Tssr30368 transcription start site region 30368 1387 bp upstream
Tssr30369 transcription start site region 30369 1400 bp upstream
Tssr30370 transcription start site region 30370 1407 bp upstream
Tssr30371 transcription start site region 30371 1427 bp upstream
Tssr30372 transcription start site region 30372 1440 bp upstream
Tssr30373 transcription start site region 30373 1491 bp upstream
Tssr30374 transcription start site region 30374 1509 bp upstream
Tssr30375 transcription start site region 30375 1522 bp upstream
Tssr30376 transcription start site region 30376 1548 bp upstream
Tssr30377 transcription start site region 30377 1570 bp upstream
Tssr30378 transcription start site region 30378 1603 bp upstream
Tssr30379 transcription start site region 30379 1621 bp upstream
Tssr30380 transcription start site region 30380 1701 bp upstream
Tssr30381 transcription start site region 30381 1719 bp upstream
Tssr30382 transcription start site region 30382 1778 bp upstream
Tssr30383 transcription start site region 30383 1789 bp upstream
Tssr30384 transcription start site region 30384 1798 bp upstream
Tssr30385 transcription start site region 30385 1814 bp upstream
Tssr30386 transcription start site region 30386 1835 bp upstream
Tssr30387 transcription start site region 30387 1926 bp upstream
Tssr30388 transcription start site region 30388 1952 bp upstream
Tssr30389 transcription start site region 30389 1966 bp upstream
Tssr34352 transcription start site region 34352 598 bp downstream
Tssr34353 transcription start site region 34353 619 bp downstream
Tssr34354 transcription start site region 34354 629 bp downstream
Tssr34355 transcription start site region 34355 767 bp downstream
Tssr34356 transcription start site region 34356 1439 bp downstream
Tssr34357 transcription start site region 34357 1484 bp downstream
Tssr34358 transcription start site region 34358 1536 bp downstream
Tssr34359 transcription start site region 34359 1605 bp downstream
Tssr34360 transcription start site region 34360 1686 bp downstream
Tssr34361 transcription start site region 34361 1707 bp downstream
Tssr34362 transcription start site region 34362 1756 bp downstream
Tssr34363 transcription start site region 34363 1783 bp downstream
Tssr34364 transcription start site region 34364 1800 bp downstream
Tssr34365 transcription start site region 34365 1814 bp downstream
Tssr34366 transcription start site region 34366 1874 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