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rs242521819 SNP Detail
Summary
  • ID
    rs242521819
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr13:46119174 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                GCAGGGTGCA ACTCAGGCAA
    CCTGGGAGAC TCGCAGCGAC GGGTGTCAGG ATTTGGCTCC TACTTGGTAA AATACCCAAG
    GGGGCGGGGA AGTCGGCTGA TTTCTAATTA CGAAGTGCCC TTGGTGCCCC CCGGGTGAGC
    ATCTAAAGAG GACTCATTGT ATCCTTACTG TTAACCCTCC AACCCGCCAG CCCTGCGTCA
    Y
    CCGAGGCAAG GCCCGCGCCT GCTGCCTTGG CTTGCAACTC GGGAAAGTTC TCAGGCTTCC
    CCAGCTTGCA CTGGCACCCT CACCTTTCCT GCCTGGACAA GCTGGCGACC TCCCGGTCCT
    CCTTTCAAAT TCTGCTGGTC TCGAAATCTG CTGTGGGCAT GGAACGCCTC AGCTCTAGCT
    AGCCCTGGTA ACCGACCTCA                                            
    
    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
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
ss388491988 MGP_WTSI_13_46061067 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 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
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
rs242521819 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 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
ss388491988 MGP_WTSI_13_46061067 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr13:46119174 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
5033430I15Rik RIKEN cDNA 5033430I15 gene within coordinates
Atxn1 ataxin 1 707 bp upstream
Cpgi5536 CpG island 5536 within coordinates
Gm56575 predicted gene, 56575 within coordinates
Rr403752 regulatory region 403752 498 bp downstream
Rr478835 regulatory region 478835 395 bp distal
Rr478836 regulatory region 478836 within coordinates
Rr478837 regulatory region 478837 523 bp proximal
Rr478838 regulatory region 478838 588 bp proximal
Rr478839 regulatory region 478839 1053 bp proximal
Tssr119584 transcription start site region 119584 467 bp downstream
Tssr119585 transcription start site region 119585 222 bp downstream
Tssr122339 transcription start site region 122339 1979 bp upstream
Tssr122340 transcription start site region 122340 697 bp upstream
Tssr122341 transcription start site region 122341 581 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
12/17/2024
MGI 6.24
The Jackson Laboratory