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rs258289364 SNP Detail
Summary
  • ID
    rs258289364
  • Variation Type
    SNP
  • Alleles
    G/T
Genome Location and Flanking Sequence
  • Location
    Chr6:41522949 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                TCTGTGCAGG TTCTTTTACC
    GTTGTTTCAA GACCAGAAGT AAAGCGATAT CCACAGAAAT AGGAGAAAGG ATCAAAATAA
    AGTTTCTCCA TTATCCAGAA GGCCGTGGGT TGCTAACACA AAATATATCT ATCTCTTTAT
    CTTCAGCAAA TCACTTGGAA GCAAAGAACA GAGAGAAAGT CACAAAGAAC TGGGAATGTT
    K
    AGAGGCAGAG AAGTTGATAG GTTTATTTCA CACACCACAA AACTCAGTAA ATCTTACATA
    CTCATGAATC CACTGTAGAC CAGGATGTCT ACACATGCAG GAATGAAAAT GGGCCATCTA
    TTGTAGTCTG AAGAAAGCCT TCCCATGCCA AATGTTTATC TCAACTTTAA TTACCCTTTA
    ATCCTGGCCT CTTAGCTTCC                                            
    
    K = G/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
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
ss368070478 MGP_WTSI_6_41496014 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 G 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
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
rs258289364 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 G 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
ss368070478 MGP_WTSI_6_41496014 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP G/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr6:41522949 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Gm68244 predicted gene, 68244 1725 bp upstream
Gm68268 predicted gene, 68268 84 bp upstream
Rr629250 regulatory region 629250 1971 bp distal
Rr629251 regulatory region 629251 1235 bp distal
Tcrb T cell receptor beta chain within coordinates
Trbc2 T cell receptor beta, constant 2 715 bp upstream
Tssr1821 transcription start site region 1821 1125 bp downstream
Tssr1822 transcription start site region 1822 1505 bp upstream
Tssr55944 transcription start site region 55944 1986 bp downstream
Tssr55945 transcription start site region 55945 1495 bp downstream
Tssr55946 transcription start site region 55946 1182 bp downstream
Tssr55947 transcription start site region 55947 998 bp downstream
Tssr55948 transcription start site region 55948 62 bp upstream
Tssr55949 transcription start site region 55949 248 bp upstream
Tssr55950 transcription start site region 55950 555 bp upstream
Tssr55951 transcription start site region 55951 1282 bp upstream
Tssr55952 transcription start site region 55952 1329 bp upstream
Tssr55953 transcription start site region 55953 1365 bp upstream
Tssr55954 transcription start site region 55954 1413 bp upstream
Tssr55955 transcription start site region 55955 1438 bp upstream
Tssr55956 transcription start site region 55956 1479 bp upstream
Tssr55957 transcription start site region 55957 1767 bp upstream
Tssr60576 transcription start site region 60576 1736 bp upstream
Tssr60577 transcription start site region 60577 1646 bp upstream
Tssr60578 transcription start site region 60578 1625 bp upstream
Tssr60579 transcription start site region 60579 1158 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
03/25/2025
MGI 6.24
The Jackson Laboratory