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rs259307609 SNP Detail
Summary
  • ID
    rs259307609
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr7:24098314 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                GGTGGGGAGA GCCCAGCAGT
    CCTGAGGCCA AGGCAGGTGG GTTTCTTTGA GTTCTAGACC AGCCTGGTCT ACACAGTAAG
    ACCCCACCTC AAAACAAGAG AGCTGCCTTT AATCCCAGCA CTTGGGAGGC AGAGGCAGGC
    GGATTTCTGA GTTTGAGACC AGCCTGGTCT ACAGAGTGAG TTCCAGGACA GCCAGGGCTA
    Y
    ACAGAGAAAC CCTGTCTCAA AACAAACAAA CAAACAAACA AACAAACAAA CAAATAACCA
    AGAGAGCTGA TTGTGGCGGC ACACACAGGT AGGTTATGCT GAAGAGGCAG ACACAGGAGG
    GTAAGTTTGA GGTCAGGCTG ATGGACTCAC GGTTTTTTTT CTTTAAGAAA GGAAAAGCAA
    TAGGGGAGGT GGAACTTCTG                                            
    
    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
ss370783902 MGP_WTSI_7_25183908 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 C 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
rs259307609 SNP T T T T T T T T T T T T T T T T T T T C 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
ss370783902 MGP_WTSI_7_25183908 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr7:24098314 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Cpgi18537 CpG island 18537 297 bp proximal
Gm74022 predicted gene, 74022 122 bp downstream
Rr643435 regulatory region 643435 1506 bp distal
Rr643436 regulatory region 643436 640 bp distal
Rr643437 regulatory region 643437 240 bp proximal
Rr643438 regulatory region 643438 741 bp proximal
Rr643439 regulatory region 643439 1036 bp proximal
Rr643440 regulatory region 643440 1684 bp proximal
Smg9 SMG9 nonsense mediated mRNA decay factor 792 bp upstream
Tssr64959 transcription start site region 64959 717 bp upstream
Tssr64960 transcription start site region 64960 785 bp upstream
Tssr64961 transcription start site region 64961 924 bp upstream
Tssr64962 transcription start site region 64962 1070 bp upstream
Tssr64963 transcription start site region 64963 1088 bp upstream
Tssr64964 transcription start site region 64964 1124 bp upstream
Tssr71075 transcription start site region 71075 969 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