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rs230853623 SNP Detail
Summary
  • ID
    rs230853623
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr11:96242714 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                ATCTCCCCCC CCCCGCGAAA
    TTGCTCCATT GCATAAACCT GGGGGGGGCG GGAGAGGGGG GTCCCTCTGA TTCTCCCTCC
    TGACGCCCCC CCCAGCAGGC CCCCTCCCCC ACCATTGAAA GCCATGAATT TTGAATTTGA
    GAGGGAGATT GGGTTTATAA ACAGCCAGCC ATCGCTCGCC GAGTGTCTGA CTTCCTTCCC
    Y
    GCTGTCTTGG AGACATTTCA AACTTCATCA ATCAAGGAGT CGACATTAAT TCCTCCTCCT
    CCTCCTCTGG AGCAAACCTT CCCCAGCCTC CAGCTCGGCG CCTCCACCCT TCAGAGACCA
    GGGAGCCAAA AGCAAGCCGG AGATGGGCCT GCTCTGCGGT CACCGCCGCC ACTCCCCGTT
    GCCCCCCCAG CCCCCGAGTT                                            
    
    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
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
ss384367039 MGP_WTSI_11_96213202 EVA_MGPV3 EVA_MGPV3 f SNP C C C T T C C C C T C C C C C C C C C C T C T C C C C T C C C C T C C C C C C T C C C C C C C C 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
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
rs230853623 SNP C C C T T C C C C T C C C C C C C C C C T C T C C C C T C C C C T C C C C C C T C C C C C C C C 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
ss384367039 MGP_WTSI_11_96213202 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr11:96242714 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Cpgi3656 CpG island 3656 124 bp proximal
Cpgi3657 CpG island 3657 780 bp proximal
Hoxb2 homeobox B2 within coordinates
Hoxb3os homeobox B3 and homeobox B2, opposite strand within coordinates
Rr141 regulatory region 141 1440 bp distal
Rr454 regulatory region 454 1668 bp distal
Rr455383 regulatory region 455383 1813 bp distal
Rr455384 regulatory region 455384 1420 bp distal
Rr455385 regulatory region 455385 247 bp distal
Tssr104519 transcription start site region 104519 253 bp downstream
Tssr104520 transcription start site region 104520 14 bp downstream
Tssr104521 transcription start site region 104521 10 bp upstream
Tssr104522 transcription start site region 104522 62 bp upstream
Tssr104523 transcription start site region 104523 86 bp upstream
Tssr104524 transcription start site region 104524 166 bp upstream
Tssr104525 transcription start site region 104525 232 bp upstream
Tssr104526 transcription start site region 104526 976 bp upstream
Tssr104527 transcription start site region 104527 998 bp upstream
Tssr104528 transcription start site region 104528 1187 bp upstream
Tssr104529 transcription start site region 104529 1239 bp upstream
Tssr104530 transcription start site region 104530 1267 bp upstream
Tssr104531 transcription start site region 104531 1436 bp upstream
Tssr110331 transcription start site region 110331 1761 bp upstream
Tssr110332 transcription start site region 110332 1689 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

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