rs50838690 SNP Detail

Summary

• ID
  rs50838690
• Variation Type
  SNP
• Alleles
  A/T

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

Genome Location and Flanking Sequence

• Location
  Chr3:79051514 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        AACGGCAAAA AACTTGTAAC ATGGTGACAC AAAAGTCGCA
  CTACAGGAGT GCACATATTC CCGGAACAGG AGGCTCTGAC CTGGAGTTAG ACACAGAAAT
  W
  TGTTTCTCAC AAATAGCAGT TGTTGCCTGT GGGATTTCAG CAAGACAATC GCACAGCTGA
  CTCATGGGAC CAATTACAAA GGAGCAGTAA TCTTTCCTGT                      
  
  W = A/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	A/J	BALB/cByJ	BTBR T<+> Itpr3/J	KK/HlJ	MOLF/EiJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60421103	NES15922953	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	T	A	A	A
SNP Consensus Information
SNP					Consensus Type	A/J	BALB/cByJ	BTBR T<+> Itpr3/J	KK/HlJ	MOLF/EiJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs50838690					SNP	A	A	A	A	T	A	A	A

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
ss60421103	NES15922953	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:79051514 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Rapgef2	Rap guanine nucleotide exchange factor (GEF) 2			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr578466	regulatory region 578466			within coordinates
Rr578467	regulatory region 578467			760 bp proximal
Rr578468	regulatory region 578468			1658 bp proximal
Tssr33630	transcription start site region 33630			1241 bp upstream
Tssr33631	transcription start site region 33631			199 bp downstream
Tssr33632	transcription start site region 33632			1705 bp downstream