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rs259257548 SNP Detail
Summary
  • ID
    rs259257548
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr11:69300823 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                ATCTTAGAGC CCAGAAGCTG
CTTCCCTGCG CATACCCCAG GTCCCGGCAG GTAGGGAGCC TACTCTGCTC CCGGGATCGG
TCCATTGAGA GTCTAGAGTA CAAAGACCGG CGAGAGGCTA GTGTCGAGTA CAAAGCCGCG
GGGGCGGGGC TAGCGCTCCA GCTGGAGAAA GCGCCGGGCA GGAAGCCGGG GGAGAGCGAG
Y
GCGCGGCGAG GGGTTGGGGG CGGCTGGAAA GTTCGCCTTG GCCGAGAAGT CTGCACCGGG
AGGAAATTTC CAGCCAGCCC ACAAAGGCAG AAGGGTTTCT GGCGAAAACT GTCTTTCCTC
CCGCTGGGGG CAAGGTCATC TGTACGTGAA ATGTGCTTGG ACCCGACAGA TCCTGCAGGC
TGCTCCGGTC CGGTCCCCGG                                            

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
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
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
ss383783475 MGP_WTSI_11_69223499 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 T C C C C
SNP Consensus Information
SNP Consensus Type
129P2/OlaHsd
129S1/SvImJ
129S5/SvEvBrd
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
SPRET/EiJ
ST/bJ
SWR/J
WSB/EiJ
ZALENDE/EiJ
rs259257548 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 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
ss383783475 MGP_WTSI_11_69223499 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr11:69300823 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
Cpgi3128 CpG island 3128 within coordinates
Gm72923 predicted gene, 72923 1321 bp upstream
Gm72933 predicted gene, 72933 100 bp upstream
Kdm6b KDM1 lysine (K)-specific demethylase 6B within coordinates
Rr247028 regulatory region 247028 within coordinates
Rr369256 regulatory region 369256 14 bp downstream
Rr402670 regulatory region 402670 1101 bp downstream
Rr402671 regulatory region 402671 337 bp downstream
Tssr3543 transcription start site region 3543 1273 bp upstream
Tssr102456 transcription start site region 102456 1053 bp downstream
Tssr102457 transcription start site region 102457 693 bp downstream
Tssr102458 transcription start site region 102458 308 bp downstream
Tssr102459 transcription start site region 102459 277 bp downstream
Tssr102460 transcription start site region 102460 252 bp downstream
Tssr102461 transcription start site region 102461 218 bp downstream
Tssr102462 transcription start site region 102462 185 bp downstream
Tssr102463 transcription start site region 102463 554 bp upstream
Tssr102464 transcription start site region 102464 828 bp upstream
Tssr102465 transcription start site region 102465 947 bp upstream
Tssr102466 transcription start site region 102466 1104 bp upstream
Tssr102467 transcription start site region 102467 1322 bp upstream
Tssr102468 transcription start site region 102468 1358 bp upstream
Tssr102469 transcription start site region 102469 1400 bp upstream
Tssr102470 transcription start site region 102470 1968 bp upstream
Tssr108665 transcription start site region 108665 1435 bp upstream
Tssr108666 transcription start site region 108666 837 bp upstream
Tssr108667 transcription start site region 108667 586 bp upstream
Tssr108668 transcription start site region 108668 575 bp upstream
Tssr108669 transcription start site region 108669 552 bp upstream
Tssr108670 transcription start site region 108670 428 bp upstream
Tssr108671 transcription start site region 108671 91 bp upstream
Tssr108672 transcription start site region 108672 371 bp downstream
Tssr108673 transcription start site region 108673 399 bp downstream
Tssr108674 transcription start site region 108674 443 bp downstream
Tssr108675 transcription start site region 108675 610 bp downstream
Tssr108676 transcription start site region 108676 655 bp downstream
Tssr108677 transcription start site region 108677 699 bp downstream
Tssr108678 transcription start site region 108678 715 bp downstream
Tssr108679 transcription start site region 108679 1014 bp downstream
Tssr108680 transcription start site region 108680 1668 bp downstream
Tssr108681 transcription start site region 108681 1699 bp downstream
Tssr108682 transcription start site region 108682 1742 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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Send questions and comments to User Support. 		last database update
12/17/2024
MGI 6.24 		The Jackson Laboratory