rs31127092 SNP Detail

Summary

• ID
  rs31127092
• 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
  Chr1:150869217 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                    AGCGGCCGC GTGCAGGGAG CTGCGAGTAG
  CCGAGCGCCC GCAGAGCGCG GGGTCCATGC CCTGGGGGAC GCTGCGAGCC TGCGGTGCCG
  CCTCCGCCGC CGCGCTCCAG GCCAGCGACT GAGCCTCCCA ACTTTCCACA GCTAGCCCCT
  Y
  GGAGGCGAAG CCCGGCGCGA CCTCTCCTTC TGATTGGCCA GCGGCCGTCC CTCCTCTGCT
  GGAGCCCCCA CCCCGGAGGG CGACTTTCCC CCTCTGTGAG TTCCAAGTCT CTCCAGTACC
  GGGGAAGCGC TCGCAAAGTC AGCTCTGGTG                                 
  
  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	A/J	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	LG/J	NZW/LacJ	PWD/PhJ	SM/J
ss49705599	NES13072123	PERLEGEN	MM_PANEL2	f	SNP	T	C	T	C	T		T	C
ss320052978	CHEV_1_152840596	CHEVERUD	SCREENING_POP	f	SNP						T			C
SNP Consensus Information
SNP					Consensus Type	A/J	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	LG/J	NZW/LacJ	PWD/PhJ	SM/J
rs31127092					SNP	T	C	T	C	T	T	T	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
ss49705599	NES13072123	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:150869217 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi846	CpG island 846			within coordinates
Gm29188	predicted gene 29188			98 bp upstream
Hmcn1	hemicentin 1			mRNA-UTR
				Noncoding-Transcript-Variant
Rr420192	regulatory region 420192			827 bp distal
Rr420193	regulatory region 420193			within coordinates
Rr420194	regulatory region 420194			393 bp proximal
Rr420195	regulatory region 420195			507 bp proximal
Rr420196	regulatory region 420196			1037 bp proximal
Tssr14167	transcription start site region 14167			311 bp upstream
Tssr14168	transcription start site region 14168			17 bp upstream