rs27041022 SNP Detail

Summary

• ID
  rs27041022
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr11:98661284 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACGTGGGTGG GGCACAGACG
  GTGCCCATTG CTGTTAGGTT GGTGGCAGCT GTGGTGGGTG GGGCCAGAAG GCCAGGTAGG
  CGGGTAGGAG GAAGGGCCCT GGCGTAGACC ATTCAGCGCT TCATTATGAC GCTGAGCCGC
  CAAAAGGTTG TTGTCGTTGG GGGCAGACGG GCATCCCTGA CTCTCCCAGC GGTGTGGAGT
  Y
  GTAGCTGAAG GGCTACCTGA TGCATGATTG GCATTGAAGT TACCAGGTGA GGTGCCTAAC
  TTGTCATGGG CATAGGTGAA GATTTCTCGA TGGGCCCGGG CGACCTGGGA TATCACATCC
  TCCATGGTGG GCTCAGGGCT GGGAGACCTG GGTGGTGTCA GCTGTTGTGG GAACTGAGAG
  AAGCCCACCA AAGGTGTGGG                                            
  
  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
ss37289751	NES08557076	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T
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
rs27041022					SNP	T	T	T	T	T	T	C	T	T	T	T	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
ss37289751	NES08557076	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:98661284 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi3768	CpG island 3768			1730 bp distal
Nr1d1	nuclear receptor subfamily 1, group D, member 1			Coding-Synonymous
				Noncoding-Transcript-Variant
Rr456272	regulatory region 456272			259 bp proximal
Thra	thyroid hormone receptor alpha			1452 bp downstream
Tssr110588	transcription start site region 110588			105 bp upstream
Tssr110589	transcription start site region 110589			1662 bp downstream