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rs258005369 SNP Detail
Summary
  • ID
    rs258005369
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr3:131195147 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                GAAGGAAGCT GGCATTTACC
    TAAGCCAACT GGAACTTGCT ATTATTTACA GGTCAAGAGT TAAAATTTAT TGAAGTTTGC
    TTTGATGAAA GAGGTTTACG TTCAGACTTT TGTACTTTCC AGCCTTAATT ACTAACCTCA
    TTAATCCTTA CTTAATCGTT GCTATTGTCT AAGGTAGTCC TAATGCCATT TTTACCTGTT
    Y
    GGGATGGTTA ACATAACCGA GGTGAAACCA AAGAACTGAA CAGTTAAAGG ATTCAAAGTT
    CACGCGAACA CACTGACAAA AAGAGTTGAG CCTCTTCAGT ATTTCAAACA CATGTCAAAA
    TAATTTAAGG TCATTTTAGA AATAAGCAAG TCTTGGAAAT AGAGGAACGG CGGATTAATA
    AAAGATTACA GGATATAGCA                                            
    
    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
ss359739285 MGP_WTSI_3_131152350 EVA_MGPV3 EVA_MGPV3 f SNP C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C T C C C C
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
rs258005369 SNP C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C C T C C C C
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
ss359739285 MGP_WTSI_3_131152350 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr3:131195147 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Cpgi13839 CpG island 13839 226 bp proximal
Gm36753 predicted gene, 36753 930 bp upstream
Rr585350 regulatory region 585350 495 bp distal
Rr585351 regulatory region 585351 506 bp proximal
Rr585352 regulatory region 585352 1019 bp proximal
Rr585353 regulatory region 585353 1279 bp proximal
Sgms2 sphingomyelin synthase 2 within coordinates
Tssr1055 transcription start site region 1055 326 bp upstream
Tssr1056 transcription start site region 1056 619 bp upstream
Tssr31735 transcription start site region 31735 351 bp upstream
Tssr31736 transcription start site region 31736 965 bp upstream
Tssr35707 transcription start site region 35707 365 bp upstream
Tssr35708 transcription start site region 35708 336 bp upstream
Tssr35709 transcription start site region 35709 361 bp downstream
Tssr35710 transcription start site region 35710 377 bp downstream
Tssr35711 transcription start site region 35711 525 bp downstream
Tssr35712 transcription start site region 35712 551 bp downstream
Tssr35713 transcription start site region 35713 792 bp downstream
Tssr35714 transcription start site region 35714 1066 bp downstream
Tssr35715 transcription start site region 35715 1124 bp downstream
Tssr35716 transcription start site region 35716 1267 bp downstream
Tssr35717 transcription start site region 35717 1343 bp downstream
Tssr35718 transcription start site region 35718 1361 bp downstream
Tssr35719 transcription start site region 35719 1604 bp downstream
Tssr35720 transcription start site region 35720 1667 bp downstream
Tssr35721 transcription start site region 35721 1889 bp downstream
Tssr35722 transcription start site region 35722 1941 bp downstream
Tssr35723 transcription start site region 35723 2000 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