rs51739534 SNP Detail

Summary

• ID
  rs51739534
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr1:87208517 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCGCTGAAGA TTTTTCTGAG
  GGGCTCAGCT GGTGAGACAC TTTGTCTCAA TGTTTATAAG GCTGTAATGG TTAGCACTCT
  CCGGACCAGA AAGGAATTCC ATTGTATATG CCCAGGAATC TTGGGTACCA TGCTGTGGGG
  TCAGACTCAG AATCCATGCA TACATAGGCC ATATAGATAG AGCTCCTGTC ATTTCTGCTG
  Y
  CCTTCATATG TGAATGGCAG AAGATGTAAT TCAGCTAAAA CAGCTAGAAT CTTCCTTGGG
  ACGGTGAGTA CACCCTGTGC CTGCCCTAAC ATCAAGCAAG CTGAGGGCTT CATAGTTTAA
  ATGCAATCAC TGGTAGTTCT TGTCTTCCCT GCTACTGGAG AAAACCTAAA AACCCTTGCT
  TGCCCGGGGC AGGAGAGATG                                            
  
  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	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60764002	NES16394046	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	C	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs51739534					SNP	T	T	T	T	T	T	T	T	T	C	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
ss60764002	NES16394046	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:87208517 () 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			1034 bp proximal
Rr414773	regulatory region 414773			1215 bp proximal
Rr414774	regulatory region 414774			1383 bp proximal
Tssr7837	transcription start site region 7837			962 bp upstream