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rs580147563 SNP Detail
Summary
  • ID
    rs580147563
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr3:93353030 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                          AACGT GAGGAAGAGC AGCTGCGGGA
Y
AGACCATCCC GCCGGGAACA AGAAC                                      

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
ss916289612 MGP_WTSI_3_93445723 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 T C C C C T C C C C C T C C C C C C T C C C C C C C C 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
rs580147563 SNP 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 T C C C C C T C C C C C C T C C C C C C C C 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
ss916289612 MGP_WTSI_3_93445723 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr3:93353030 () 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 929 bp upstream
Gm66249 predicted gene, 66249 within coordinates
Tchh trichohyalin within coordinates
Tssr961 transcription start site region 961 1717 bp downstream
Tssr962 transcription start site region 962 597 bp downstream
Tssr963 transcription start site region 963 561 bp downstream
Tssr964 transcription start site region 964 462 bp downstream
Tssr30356 transcription start site region 30356 1993 bp downstream
Tssr30357 transcription start site region 30357 1938 bp downstream
Tssr30358 transcription start site region 30358 1820 bp downstream
Tssr30359 transcription start site region 30359 1794 bp downstream
Tssr30360 transcription start site region 30360 1764 bp downstream
Tssr30361 transcription start site region 30361 1439 bp downstream
Tssr30362 transcription start site region 30362 1423 bp downstream
Tssr30363 transcription start site region 30363 1281 bp downstream
Tssr30364 transcription start site region 30364 1209 bp downstream
Tssr30365 transcription start site region 30365 1174 bp downstream
Tssr30366 transcription start site region 30366 1121 bp downstream
Tssr30367 transcription start site region 30367 1082 bp downstream
Tssr30368 transcription start site region 30368 1058 bp downstream
Tssr30369 transcription start site region 30369 1054 bp downstream
Tssr30370 transcription start site region 30370 1045 bp downstream
Tssr30371 transcription start site region 30371 1018 bp downstream
Tssr30372 transcription start site region 30372 1008 bp downstream
Tssr30373 transcription start site region 30373 955 bp downstream
Tssr30374 transcription start site region 30374 941 bp downstream
Tssr30375 transcription start site region 30375 928 bp downstream
Tssr30376 transcription start site region 30376 892 bp downstream
Tssr30377 transcription start site region 30377 866 bp downstream
Tssr30378 transcription start site region 30378 844 bp downstream
Tssr30379 transcription start site region 30379 827 bp downstream
Tssr30380 transcription start site region 30380 748 bp downstream
Tssr30381 transcription start site region 30381 731 bp downstream
Tssr30382 transcription start site region 30382 676 bp downstream
Tssr30383 transcription start site region 30383 665 bp downstream
Tssr30384 transcription start site region 30384 656 bp downstream
Tssr30385 transcription start site region 30385 631 bp downstream
Tssr30386 transcription start site region 30386 609 bp downstream
Tssr30387 transcription start site region 30387 515 bp downstream
Tssr30388 transcription start site region 30388 496 bp downstream
Tssr30389 transcription start site region 30389 474 bp downstream
Tssr30390 transcription start site region 30390 403 bp downstream
Tssr30391 transcription start site region 30391 393 bp downstream
Tssr30392 transcription start site region 30392 375 bp downstream
Tssr30393 transcription start site region 30393 364 bp downstream
Tssr30394 transcription start site region 30394 338 bp downstream
Tssr30395 transcription start site region 30395 311 bp downstream
Tssr30396 transcription start site region 30396 261 bp downstream
Tssr30397 transcription start site region 30397 245 bp downstream
Tssr30398 transcription start site region 30398 167 bp downstream
Tssr30399 transcription start site region 30399 88 bp downstream
Tssr30400 transcription start site region 30400 353 bp upstream
Tssr30401 transcription start site region 30401 373 bp upstream
Tssr30402 transcription start site region 30402 472 bp upstream
Tssr30403 transcription start site region 30403 512 bp upstream
Tssr30404 transcription start site region 30404 1650 bp upstream
Tssr30405 transcription start site region 30405 1761 bp upstream
Tssr30406 transcription start site region 30406 1909 bp upstream
Tssr34352 transcription start site region 34352 1839 bp upstream
Tssr34353 transcription start site region 34353 1833 bp upstream
Tssr34354 transcription start site region 34354 1782 bp upstream
Tssr34355 transcription start site region 34355 1685 bp upstream
Tssr34356 transcription start site region 34356 1004 bp upstream
Tssr34357 transcription start site region 34357 939 bp upstream
Tssr34358 transcription start site region 34358 880 bp upstream
Tssr34359 transcription start site region 34359 805 bp upstream
Tssr34360 transcription start site region 34360 760 bp upstream
Tssr34361 transcription start site region 34361 703 bp upstream
Tssr34362 transcription start site region 34362 690 bp upstream
Tssr34363 transcription start site region 34363 665 bp upstream
Tssr34364 transcription start site region 34364 650 bp upstream
Tssr34365 transcription start site region 34365 624 bp upstream
Tssr34366 transcription start site region 34366 556 bp upstream
Tssr34367 transcription start site region 34367 391 bp upstream
Tssr34368 transcription start site region 34368 361 bp upstream
Tssr34369 transcription start site region 34369 335 bp upstream
Tssr34370 transcription start site region 34370 309 bp upstream
Tssr34371 transcription start site region 34371 166 bp upstream
Tssr34372 transcription start site region 34372 485 bp downstream
Tssr34373 transcription start site region 34373 1653 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