rs48580399 SNP Detail

Summary

• ID
  rs48580399
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr8:26086782 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGGTGTAAAA TTTCCTTCAA
  GTTCATTTAC AAAAGCCTCA GTATTTTCTT AGCTCTGGAT TTGAAAATGG TACTTTTTCG
  ATCCAAACAC ACAGAAATGG GTTCTAAGAA GATGATCCTG AAGACGATGT GGCCTCCAAA
  GGCTTTTTTT TTTTTAATTT TTTAAATTTC TGGTCAATAG TGTCTAATAA TCTGCTGCGA
  Y
  GGTTAAAAGG AGAAAGACAT CTTTATCTGT AACCAGAAAA TACAAGTAGA AAGTAAGCAC
  CCTGGATTCA TTTACCACCA ACCCAAAAGT CTAAAAGTTC TCACTAATTT CATGTGGGAA
  CAGCGAAGAC ATAATGGTAT CTACTAAAGG CTCAAGCGCA GATGCAGAAT CTCCAGAGTC
  CGAACTAAGC TCTGTACCTT                                            
  
  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
ss60582830	NES16320611	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C
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
rs48580399					SNP	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C

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
ss60582830	NES16320611	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr8:26086782 () rs orientation: forward

Symbol	Name	Function Class
Cpgi20188	CpG island 20188	165 bp proximal
D830025C05Rik	RIKEN cDNA D830025C05 gene	246 bp upstream
Gm45570	predicted gene 45570	1660 bp upstream
Letm2	leucine zipper-EF-hand containing transmembrane protein 2	within coordinates
Rr368506	regulatory region 368506	668 bp upstream
Rr400804	regulatory region 400804	182 bp upstream
Tssr76686	transcription start site region 76686	330 bp upstream
Tssr76687	transcription start site region 76687	928 bp upstream
Tssr80717	transcription start site region 80717	234 bp downstream
Tssr80718	transcription start site region 80718	693 bp downstream
Tssr80719	transcription start site region 80719	775 bp downstream
Tssr80720	transcription start site region 80720	845 bp downstream