rs27289040 SNP Detail

Summary

• ID
  rs27289040
• 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
  Chr2:168406772 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGCATGCTC CAAGATGCAC
  AGAGCCCTTC GAAGGAGTCT CCCGGTGTCC TTCCTCTTGC TCCACACAGA GAGCCAGAGC
  CTGAGTTCTG TGTCCTCTTC GTCATCTACC CTGGCAACCC TAGTCCTCCA CCCCTCCCCA
  ACCCTCACAT TCCAGTTACA CCAGCCTCTT TCTGCTCCTC CTCTCAACCG CTCTTCCTCC
  Y
  GGGACCCTGG GTGCAAGCTG CTCCCTACCC CCACTCCAGT GTCCCGTGTC TTCAGCCCCA
  GTCCCTTCCT CAAAGAACTC CACTGACCTC TGTCCCAGCC ACACCCACAC CTCTGTTCCA
  CAGGCCCAAA GCCCCAGGAA CTTTTCCTTC CTATCTCTTG ACATGGTTAA TCCATCCACC
  ACCCTCCAGA CCATCGCTGT                                            
  
  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
ss37504662	NES08836405	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	T	T	T	C	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
rs27289040					SNP	T	T	T	T	T	T	C	T	T	T	T	T	T	C	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
ss37504662	NES08836405	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:168406772 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm74616	predicted gene, 74616			707 bp upstream
Nfatc2	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2			Intron
				Noncoding-Transcript-Variant
Rr571014	regulatory region 571014			926 bp distal
Rr571015	regulatory region 571015			521 bp distal
Rr571016	regulatory region 571016			748 bp proximal