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rs27041023 SNP Detail
Summary
  • ID
    rs27041023
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr11:98661200 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                CTCCATGCCC TCACCAGCAG
    AACATTCTTG GTGTTGCCTT GCCGTAGACT GTTGGCAGGT GCCTCCCCTT CTGGGGCCGA
    ATATACGTGG GTGGGGCACA GACGGTGCCC ATTGCTGTTA GGTTGGTGGC AGCTGTGGTG
    GGTGGGGCCA GAAGGCCAGG TAGGCGGGTA GGAGGAAGGG CCCTGGCGTA GACCATTCAG
    Y
    GCTTCATTAT GACGCTGAGC CGCCAAAAGG TTGTTGTCGT TGGGGGCAGA CGGGCATCCC
    TGACTCTCCC AGCGGTGTGG AGTTGTAGCT GAAGGGCTAC CTGATGCATG ATTGGCATTG
    AAGTTACCAG GTGAGGTGCC TAACTTGTCA TGGGCATAGG TGAAGATTTC TCGATGGGCC
    CGGGCGACCT GGGATATCAC                                            
    
    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
129S1/SvImJ
A/J
AKR/J
BALB/cByJ
BTBR T<+> Itpr3/J
C3H/HeJ
CAST/EiJ
DBA/2J
FVB/NJ
KK/HlJ
MOLF/EiJ
NOD/ShiLtJ
NZW/LacJ
PWD/PhJ
WSB/EiJ
ss37289752 NES08557075 PERLEGEN MM_PANEL2 f SNP C C C C C C C C C C C C C T C
SNP Consensus Information
SNP Consensus Type
129S1/SvImJ
A/J
AKR/J
BALB/cByJ
BTBR T<+> Itpr3/J
C3H/HeJ
CAST/EiJ
DBA/2J
FVB/NJ
KK/HlJ
MOLF/EiJ
NOD/ShiLtJ
NZW/LacJ
PWD/PhJ
WSB/EiJ
rs27041023 SNP C C C C C C C C C C C C C T 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
ss37289752 NES08557075 PERLEGEN MM_PANEL f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr11:98661200 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
Cpgi3768 CpG island 3768 1646 bp distal
Nr1d1 nuclear receptor subfamily 1, group D, member 1 within coordinates
Rr456272 regulatory region 456272 343 bp proximal
Thra thyroid hormone receptor alpha 1368 bp downstream
Tssr110588 transcription start site region 110588 21 bp upstream
Tssr110589 transcription start site region 110589 1746 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
12/17/2024
MGI 6.24
The Jackson Laboratory