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rs253460296 SNP Detail
Summary
  • ID
    rs253460296
  • Variation Type
    SNP
  • Alleles
    C/G
Genome Location and Flanking Sequence
  • Location
    Chr2:125566947 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                ATTTCGAATA CTAAGGCAGC
    AGCCAAGAGA ATCTGGGAAG AAGGCCACCT CACCTTCTCA TTGACCACGG GCTCTCGAGT
    GCTCAGGACT TAGCCTGAAC TCCAGGGCCA TCCAAACACA GGTTTGAATG AAACCAGTGC
    AGGTGACTAG GAGACAAAGG CGCCTCGCCG CCGCCAAGCT TTTGTGCTTA GGCTCAGAAC
    S
    GCTTGTTAGT ATCCTGCCTG ACAACTTTGT GAGCTTTTTC TATCCACTGG GAAGGCCTTT
    TGTGGCGTCC TATACCTTCC TTTCTGACTT TCTTTTTGCA CCTCCACATT TGGCAAACAC
    GAAAGGAATG GCTAAATCAG AACTCATATA CCCGGAACCT AGGGAGACAG GATCAGGGGA
    GTGGAAGGTG GGAGGAGGAG                                            
    
    S = C/G
    

    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
ss355559552 MGP_WTSI_2_125550763 EVA_MGPV3 EVA_MGPV3 f SNP G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G C G G G G
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
rs253460296 SNP G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G G C G G G G
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
ss355559552 MGP_WTSI_2_125550763 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/G
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr2:125566947 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Cpgi12200 CpG island 12200 1393 bp distal
D2Dcr70 DNA Segment, Chr 2, Derry C. Roopenian 70 609 bp proximal
D2Mit398 DNA segment, Chr 2, Massachusetts Institute of Technology 398 567 bp proximal
Rr367290 regulatory region 367290 289 bp downstream
Shc4 SHC (Src homology 2 domain containing) family, member 4 879 bp upstream
Tssr26008 transcription start site region 26008 1490 bp upstream
Tssr26009 transcription start site region 26009 1336 bp upstream
Tssr26010 transcription start site region 26010 1304 bp upstream

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
12/10/2024
MGI 6.24
The Jackson Laboratory