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rs245698969 SNP Detail
Summary
  • ID
    rs245698969
  • Variation Type
    SNP
  • Alleles
    A/T
Genome Location and Flanking Sequence
  • Location
    Chr11:96242451 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                ATGAAGGAAC AGGGGTAGAG
    GAGGAAGCCT CATGGTATCC AGGTCGTGGT CCTCTGGAGT TTTTGAATCA ATTAAAGCAA
    ATAATGCCTG TGTTTTCCAC TAGGCCTAGA CTAGCGATTG GCGGAGACCG GTCCCGTGAC
    CATGAATTCC CTGCAATTTC GGCGGAGTCC TGGGTTTAAT AGAGAGAGTC CCCATACGCT
    W
    GTATTTATCA GCAATATACA ATTATAAAGG CCTAAATTTA AAAAAAAAAG AGAGAGAGCG
    AAATCTCCCC CCCCCCGCGA AATTGCTCCA TTGCATAAAC CTGGGGGGGG CGGGAGAGGG
    GGGTCCCTCT GATTCTCCCT CCTGACGCCC CCCCCAGCAG GCCCCCTCCC CCACCATTGA
    AAGCCATGAA TTTTGAATTT                                            
    
    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
ss384367034 MGP_WTSI_11_96212939 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 T A 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
rs245698969 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 T A 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
ss384367034 MGP_WTSI_11_96212939 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP A/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr11:96242451 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Cpgi3656 CpG island 3656 387 bp proximal
Cpgi3657 CpG island 3657 1043 bp proximal
Hoxb2 homeobox B2 7 bp upstream
Hoxb3os homeobox B3 and homeobox B2, opposite strand within coordinates
Rr141 regulatory region 141 1177 bp distal
Rr454 regulatory region 454 1405 bp distal
Rr455383 regulatory region 455383 1550 bp distal
Rr455384 regulatory region 455384 1157 bp distal
Rr455385 regulatory region 455385 within coordinates
Tssr104519 transcription start site region 104519 within coordinates
Tssr104520 transcription start site region 104520 244 bp upstream
Tssr104521 transcription start site region 104521 273 bp upstream
Tssr104522 transcription start site region 104522 325 bp upstream
Tssr104523 transcription start site region 104523 349 bp upstream
Tssr104524 transcription start site region 104524 429 bp upstream
Tssr104525 transcription start site region 104525 495 bp upstream
Tssr104526 transcription start site region 104526 1239 bp upstream
Tssr104527 transcription start site region 104527 1261 bp upstream
Tssr104528 transcription start site region 104528 1450 bp upstream
Tssr104529 transcription start site region 104529 1502 bp upstream
Tssr104530 transcription start site region 104530 1530 bp upstream
Tssr104531 transcription start site region 104531 1699 bp upstream
Tssr110331 transcription start site region 110331 1498 bp upstream
Tssr110332 transcription start site region 110332 1426 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
12/17/2024
MGI 6.24
The Jackson Laboratory