rs27342858 SNP Detail

Summary

• ID
  rs27342858
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr2:147021823 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGGTAAGGAA AATAAGTTAT
  TTCCCTTGTG GGAACGGGGA GTACTGAGAA GGGAGTGTTC ACTCTATGGA GTTATCTACA
  TGATGGCATT TCAAAGCACT AAAGGGGACA GAATTTGAGG TAACCTGACA TTTTCATCAA
  TGTAGTGGTG CTTCTACTTT CTCTAGAGAT ACACATCCAA TTTCTATTTT ATTTTCACAA
  Y
  GCAGTTTATA CACTTTTTTT GGTTAGAAAA TATGTTGCTT ATATGGGTGG TGTTTGTAGA
  GGTTGTACTC AGATCCAACT CAGACTGCTT AGGGAAGGCC GCACAGGGTG TGTTCTTTCT
  AAGTATTGCT CTCTGCAGGA GACACTGAGA ACTAAGGAAG GAACCTCTTC AGGTGAAGGG
  TGAAGGCTGT GGGATAAGGT                                            
  
  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	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37497379	NES08937722	PERLEGEN	MM_PANEL2	f	SNP	C		T	C	T	C	C	C	C	C	C	C	C	C
ss147881290	ENSMUSSNP5264081	ENSEMBL	ENSEMBL_Sanger	f	SNP		C	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27342858					SNP	C	C	T	C	T	C	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
ss37497379	NES08937722	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:147021823 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12376	CpG island 12376	1404 bp distal
Cpgi12377	CpG island 12377	809 bp distal
Cpgi12378	CpG island 12378	914 bp proximal
Nkx2-2	NK2 homeobox 2	within coordinates
Rr406682	regulatory region 406682	387 bp proximal