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rs254688523 SNP Detail
Summary
  • ID
    rs254688523
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr17:48041170 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                AAGTGCTCCA CTCACTAGCC
TGTCCTCTAT GTCCTGCCTC CCCTTGCAGC CACACACACC CGCTACAACC CCAGCAAGTC
CTCCACCTAC TACACTCAAG GGCAGACCTT CTCCCTGCAG TACGGCACCG GCAGCCTTAC
CGGCTTCTTC GGCTATGACA CTCTGAGAGT GAGTCAAATT CCCTACTCCT GGGTGGGGCA
Y
GGGAGGAAGA TGAGGGCCTT AGGCGAAGCC CCCGAGACGA GATGAAACGC TGTTTGTAGG
ACGGGTGTCA GCACAGTGAG ACCTCGTTCA TTCACCCGCT GACCCTCATT ATGTGTCAGG
GAAGCCATGA AGGACCCTTT GGTTGTAGCC ATTTTCCTTC AGGAGCATAA GCTCTGCTGA
GTTGAGAGGG GCAGGGCAGG                                            

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
ss398352962 MGP_WTSI_17_47867194 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
rs254688523 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
ss398352962 MGP_WTSI_17_47867194 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr17:48041170 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Pgc progastricsin (pepsinogen C) within coordinates
Rr528106 regulatory region 528106 464 bp proximal
Tssr5147 transcription start site region 5147 1494 bp downstream
Tssr5148 transcription start site region 5148 932 bp upstream
Tssr5149 transcription start site region 5149 1238 bp upstream
Tssr145004 transcription start site region 145004 1503 bp downstream
Tssr145005 transcription start site region 145005 1482 bp downstream
Tssr145006 transcription start site region 145006 1453 bp downstream
Tssr145007 transcription start site region 145007 1421 bp downstream
Tssr145008 transcription start site region 145008 1400 bp downstream
Tssr145009 transcription start site region 145009 1372 bp downstream
Tssr145010 transcription start site region 145010 990 bp downstream
Tssr145011 transcription start site region 145011 971 bp downstream
Tssr145012 transcription start site region 145012 954 bp downstream
Tssr145013 transcription start site region 145013 902 bp downstream
Tssr145014 transcription start site region 145014 108 bp downstream
Tssr145015 transcription start site region 145015 93 bp downstream
Tssr145016 transcription start site region 145016 89 bp downstream
Tssr145017 transcription start site region 145017 353 bp upstream
Tssr145018 transcription start site region 145018 365 bp upstream
Tssr145019 transcription start site region 145019 396 bp upstream
Tssr145020 transcription start site region 145020 417 bp upstream
Tssr145021 transcription start site region 145021 443 bp upstream
Tssr145022 transcription start site region 145022 475 bp upstream
Tssr145023 transcription start site region 145023 502 bp upstream
Tssr145024 transcription start site region 145024 613 bp upstream
Tssr145025 transcription start site region 145025 957 bp upstream
Tssr145026 transcription start site region 145026 1213 bp upstream
Tssr148459 transcription start site region 148459 1444 bp upstream
Tssr148460 transcription start site region 148460 1392 bp upstream
Tssr148461 transcription start site region 148461 1380 bp upstream
Tssr148462 transcription start site region 148462 1337 bp upstream
Tssr148463 transcription start site region 148463 964 bp upstream
Tssr148464 transcription start site region 148464 879 bp upstream
Tssr148465 transcription start site region 148465 118 bp upstream
Tssr148466 transcription start site region 148466 84 bp upstream
Tssr148467 transcription start site region 148467 384 bp downstream
Tssr148468 transcription start site region 148468 415 bp downstream
Tssr148469 transcription start site region 148469 505 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