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rs247473538 SNP Detail
Summary
  • ID
    rs247473538
  • Variation Type
    SNP
  • Alleles
    A/T
Genome Location and Flanking Sequence
  • Location
    Chr2:79957566 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                AATCCACTGT CAACTCAGAA
    GCTCTGCTGC TGAGAGACCT CATCACCCCT CTTAGAAACG GCCATCAAAC GACAAGGTGA
    AAAGTTAGAG AACTTTTCTC AAAAATGTTG AGTAAACACG GAATCAATTT TCTAGTTGTT
    TGAAGACATA TTTCTAACGT CACTACGGGG TATCTTTTTG CCTCGGAGTA ACTAAGGAAA
    W
    ACAATATACC AAGAGCAAAC AAAACATCCT GTCCTGTAAA GGAAGAATCT AAATGGGTTG
    TGATCTCAGT TATAGCAGCC CAGTACAGAT GTTCATCCAC TAGGTTAGAG CACAAATCAT
    CTGGTAATTG CTGATGCTTA ATTTGCATCT ATGCTAATTA ATTGTGTGAA CCACTATTTG
    TTTCGACAGG ATTATTTGTT                                            
    
    W = A/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
ss354604712 MGP_WTSI_2_79967379 EVA_MGPV3 EVA_MGPV3 f SNP A A A A A A A A A A A A A A A A T A A T A A T A A A A T A A A A A T A A A A A A T A A A A A A A A A A A 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
rs247473538 SNP A A A A A A A A A A A A A A A A T A A T A A T A A A A T A A A A A T A A A A A A T A A A A A A A A A A A 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
ss354604712 MGP_WTSI_2_79967379 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP A/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr2:79957566 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Cpgi11847 CpG island 11847 1736 bp proximal
Pde1a phosphodiesterase 1A, calmodulin-dependent Intron
Noncoding-Transcript-Variant
Rr373421 regulatory region 373421 17 bp downstream
Rr560060 regulatory region 560060 164 bp distal
Rr560061 regulatory region 560061 1707 bp proximal
Tssr24917 transcription start site region 24917 1718 bp downstream
Tssr24918 transcription start site region 24918 1791 bp downstream
Tssr24919 transcription start site region 24919 1895 bp downstream
Tssr24920 transcription start site region 24920 1938 bp downstream
Tssr24921 transcription start site region 24921 1961 bp downstream
Tssr24922 transcription start site region 24922 1995 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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last database update
03/25/2025
MGI 6.24
The Jackson Laboratory