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rs227947809 SNP Detail
Summary
  • ID
    rs227947809
  • Variation Type
    SNP
  • Alleles
    A/C
Genome Location and Flanking Sequence
  • Location
    Chr1:40125798 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                ATTGGGTGAG TGTTGAATGT
    TCGAGAGGTC GTAGTCATCA GATGTTTTAC ATGTGTGCAA CAGGCGGGAC TGTAGAATGA
    GACCCACTGA TTCATGCCCT GTAGAATCCC CTCTCATTGA GTAAGGCTGG GGTGGATAAA
    CAGAAGAATA CTTACAGACA TGCTACCTTA TATAGTACTA CTAGTACTAT ATAGTATTAT
    M
    TAGTACTCTT AGTGTACTAC CTTAAGTAGT AAGGATGAAG GATTTTTGTG GGTCACTTCA
    GGCTCGGTTA GTTAAGCTAA AGGAAGAACA GGTTGGTGGA TCCCATGTAA GAGCCTTACT
    CTTTGTGAGC TGGTCTGAAG GTCAGAGTCA AGAGATTTGA AGCAGTGTCA CATAGGCTGT
    TGGCCTTAGA GAGAGGCTTC                                            
    
    M = A/C
    

    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
ss349341457 MGP_WTSI_1_40143483 EVA_MGPV3 EVA_MGPV3 f SNP A A A A A A A A A A A A A A A A A A A C A A C A A A A C A A A A A C A A A A A A C A A A A A A A C A A A A
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
rs227947809 SNP A A A A A A A A A A A A A A A A A A A C A A C A A A A C A A A A A C A A A A A A C A A A A A A A C A A A A
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
ss349341457 MGP_WTSI_1_40143483 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP A/C
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr1:40125798 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Cpgi194 CpG island 194 574 bp distal
Gm16894 predicted gene, 16894 787 bp upstream
Gm37347 predicted gene, 37347 1873 bp upstream
Il1r2 interleukin 1 receptor, type II within coordinates
Rr26842 regulatory region 26842 769 bp proximal
Rr29353 regulatory region 29353 197 bp distal
Rr396010 regulatory region 396010 602 bp downstream
Tssr62 transcription start site region 62 1921 bp downstream
Tssr6411 transcription start site region 6411 1889 bp downstream
Tssr6412 transcription start site region 6412 1868 bp downstream
Tssr6413 transcription start site region 6413 1854 bp downstream
Tssr6414 transcription start site region 6414 1410 bp downstream
Tssr6415 transcription start site region 6415 544 bp downstream
Tssr11414 transcription start site region 11414 776 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
12/10/2024
MGI 6.24
The Jackson Laboratory