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rs226677117 SNP Detail
Summary
  • ID
    rs226677117
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr19:6096039 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                GATGTTTAAT TCCGTTGTAC
    TGAAGGAAAG CCATTTTATG TATTTTTCTT AAGTGCTCTA TCAGTAATGA CAATTCTGAA
    AGCCCCTGTG TTATATTTTA ACAACACAGT CACCTCCGGT TCTGTATTCA CTGTCCGTGT
    TGTGACTCCC ACAGTATAAA TTCCTCCAGT TGATCTTCAT GAATTCTTAT ATTTGATCCC
    Y
    CCCCCCCTTA GGCCTCTGAA TTCCGAGTGA GTCCGAGTTA AAAATGGGAG GAGCACCCTC
    TAGCTGATAA ACCTGGGTAA TGAGGTGTCC GCTTTCAGTT TCCATTCTGT ACGCGACTAT
    ACTGCTTGTG TGAGCCCTAA CAGACAGAAT CAGCTCAGAA CAAAGGGTCT GGCTATCTCC
    CAGGGATGAA CACGCACGCC                                            
    
    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
ss401668092 MGP_WTSI_19_6046009 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
rs226677117 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
ss401668092 MGP_WTSI_19_6046009 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr19:6096039 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Cpgi10491 CpG island 10491 205 bp proximal
D530017H19Rik RIKEN cDNA D530017H19 gene within coordinates
Gm8034 predicted gene 8034 1187 bp upstream
Gm59262 predicted gene, 59262 93 bp upstream
Rr370438 regulatory region 370438 299 bp upstream
Rr405816 regulatory region 405816 1528 bp downstream
Rr405817 regulatory region 405817 within coordinates
Rr543275 regulatory region 543275 1569 bp distal
Rr543276 regulatory region 543276 1705 bp distal
Rr543277 regulatory region 543277 within coordinates
Rr543278 regulatory region 543278 50 bp proximal
Rr543279 regulatory region 543279 664 bp proximal
Rr543280 regulatory region 543280 1003 bp proximal
Rr543281 regulatory region 543281 1106 bp proximal
Rr543282 regulatory region 543282 1299 bp proximal
Rr543283 regulatory region 543283 1362 bp proximal
Rr543284 regulatory region 543284 1410 bp proximal
Syvn1 synovial apoptosis inhibitor 1, synoviolin 567 bp upstream
Tssr154538 transcription start site region 154538 95 bp upstream
Tssr154539 transcription start site region 154539 620 bp upstream
Tssr154540 transcription start site region 154540 1012 bp upstream
Tssr154541 transcription start site region 154541 1046 bp upstream
Tssr154542 transcription start site region 154542 1072 bp upstream
Tssr157816 transcription start site region 157816 1108 bp upstream
Tssr157817 transcription start site region 157817 939 bp downstream
Tssr157818 transcription start site region 157818 1401 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
03/25/2025
MGI 6.24
The Jackson Laboratory