rs48993541 SNP Detail

Summary

• ID
  rs48993541
• Variation Type
  SNP
• Alleles
  C/G

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr13:53627995 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        TCAGG ATCCCACCCT AAAGCACACT
  S
  TCTATCTAAC TGCAGCCCCA AAGCA                                      
  
  S = C/G
  

  
  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	DBA/2J	FVB/NJ	KK/HlJ	LG/J	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J
ss61805328	NES17735800	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G		G	G	C
ss149017791	ENSMUSSNP2007320	ENSEMBL	ENSEMBL_Sanger	f	SNP	G		G
ss324342443	CHEV_13_53569328	CHEVERUD	SCREENING_POP	f	SNP						G				G
SNP Consensus Information
SNP					Consensus Type	A/J	BALB/cByJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J
rs48993541					SNP	G	G	G	G	G	G	G	G	C	G

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
ss61805328	NES17735800	PERLEGEN	MM_PANEL	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:53627995 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5623	CpG island 5623	803 bp distal
Cpgi5624	CpG island 5624	1647 bp proximal
Gm33763	predicted gene, 33763	within coordinates
Msx2	msh homeobox 2	1179 bp upstream
Rr281405	regulatory region 281405	794 bp distal
Rr281406	regulatory region 281406	1205 bp proximal
Tssr122586	transcription start site region 122586	1234 bp upstream
Tssr122587	transcription start site region 122587	1172 bp upstream
Tssr122588	transcription start site region 122588	1149 bp upstream
Tssr122589	transcription start site region 122589	1109 bp upstream