rs49161082 SNP Detail

Summary

• ID
  rs49161082
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr1:87208387 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGAAGGGTG GGTCCTTCCA
  GTTTACCTTG CTGTGGTTAG TGACCTCAGA CTCGGAGAGT CATGATGGGC TTCTGTTTCT
  TCAGCAGCTG GACAGTGGCA TAACTAAGAG GGTGGTGCCA AAAGATTAAA CCGCTGAAGA
  TTTTTCTGAG GGGCTCAGCT GGTGAGACAC TTTGTCTCAA TGTTTATAAG GCTGTAATGG
  Y
  TAGCACTCTC CGGACCAGAA AGGAATTCCA TTGTATATGC CCAGGAATCT TGGGTACCAT
  GCTGTGGGGT CAGACTCAGA ATCCATGCAT ACATAGGCCA TATAGATAGA GCTCCTGTCA
  TTTCTGCTGT CCTTCATATG TGAATGGCAG AAGATGTAAT TCAGCTAAAA CAGCTAGAAT
  CTTCCTTGGG ACGGTGAGTA                                            
  
  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
ss60764005	NES16394036	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	T	T	T	T	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
rs49161082					SNP	T	T	T	T	T	T	C	T	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
ss60764005	NES16394036	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:87208387 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Efhd1	EF hand domain containing 1			Intron
				Noncoding-Transcript-Variant
Rr414772	regulatory region 414772			1164 bp proximal
Rr414773	regulatory region 414773			1345 bp proximal
Rr414774	regulatory region 414774			1513 bp proximal
Tssr7837	transcription start site region 7837			1092 bp upstream