rs27041029 SNP Detail

Summary

• ID
  rs27041029
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  125
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr11:98659972 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        CACCTGCAGA GACAAGCACC ACCGCGGTGA ATAGGCCCAG
  CTCCTCCTCG GTAAGTGCCA GGGAGTTGAG CTTCTCGCTG AAGTCAAACA TGGCATTGAG
  Y
  AGGTCGCCCA TGCCCATGGC ACCGAGCTCC TGCAGACTGT AGGTTGTGCG GCTCAGGAAC
  ATCACTGTCT GGTCCTTCAC GTTGAACAAC GATGCAAAGC                      
  
  Y = C/T
  

  
  Note: Sequence in lower case indicates low-complexity or repetitive sequence

  ---

SNP Assays
and
SNP Consensus

Strain alleles of submitted assays, and consensus values for this SNP

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
ss37289758	NES08557069	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	C	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
rs27041029					SNP	C	C	C	C	C	C	T	C	C	C	C	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
ss37289758	NES08557069	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:98659972 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi3768	CpG island 3768			418 bp distal
Gm57390	predicted gene, 57390			1399 bp downstream
Nr1d1	nuclear receptor subfamily 1, group D, member 1			Coding-Synonymous
				Noncoding-Transcript-Variant
Rr456272	regulatory region 456272			1571 bp proximal
Thra	thyroid hormone receptor alpha			140 bp downstream
Tssr110587	transcription start site region 110587			909 bp upstream
Tssr110588	transcription start site region 110588			1171 bp downstream