rs27680342 SNP Detail

Summary

• ID
  rs27680342
• 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
  Chr2:180684818 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        GGGTTCATGG CTAGGGCTCA TGGGCAGGTG TCTACAGTGA
  GCACAGGGAG AGGGGACCCA AGGCCAGGTC TTGCCAAGCA GAAGCAGAGA TGTGAGGCCT
  Y
  AAAGCACTCG TTCACCATCA GGATTACTAC TGCATGGGTA CACAGCGCCT GGCTGTACTT
  CCTGCCCTTC TCTGATCAGA ACTCATCCTG ACCCTTGGC                       
  
  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	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37833069	NES08679806	PERLEGEN	MM_PANEL2	f	SNP	T		C	C	T	T	T		T	C	T	T	T	T	T	T	T
ss45328216	mCV27571610	ABI	CRAMUS_MOUSE	f	SNP	T	T	C					T		C
ss148396221	ENSMUSSNP6546006	ENSEMBL	ENSEMBL_Sanger	f	SNP		T	C							C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27680342					SNP	T	T	C	C	T	T	T	T	T	C	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
ss37833069	NES08679806	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:180684818 () rs orientation: forward

Symbol	Name	Function Class
Chrna4	cholinergic receptor, nicotinic, alpha polypeptide 4	Intron
Gm74971	predicted gene, 74971	within coordinates
Rr572911	regulatory region 572911	59 bp distal
Rr572912	regulatory region 572912	422 bp proximal
Tssr28158	transcription start site region 28158	515 bp downstream
Tssr28159	transcription start site region 28159	566 bp downstream