rs27342854 SNP Detail

Summary

• ID
  rs27342854
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:147022279 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CATGA ACATATATGG TTTGCATATA
  Y
  CCAGAGAAGT CCAGAAGCCC TAGAA                                      
  
  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	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37497375	NES08937730	PERLEGEN	MM_PANEL2	f	SNP	C	T	C	C	T	C	T	C		T	C	C		T
ss320548197	CHEV_2_147006095	CHEVERUD	SCREENING_POP	f	SNP									T				T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs27342854					SNP	C	T	C	C	T	C	T	C	T	T	C	C	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
ss37497375	NES08937730	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:147022279 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi12376	CpG island 12376			1860 bp distal
Cpgi12377	CpG island 12377			1265 bp distal
Cpgi12378	CpG island 12378			458 bp proximal
Nkx2-2	NK2 homeobox 2			Intron
				Noncoding-Transcript-Variant
Rr406682	regulatory region 406682			within coordinates
Rr566759	regulatory region 566759			776 bp distal
Rr566762	regulatory region 566762			1382 bp distal
Rr566763	regulatory region 566763			334 bp proximal