rs48960890 SNP Detail

Summary

• ID
  rs48960890
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr1:126422262 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TACCTGGAAT GACCACATTT
  GTTGAAGAAG TAACTTGATA GAGAAGTCAC CAGCAGAAAA GTTGAAAAGA AAGAAAAAAT
  TAAGCCATTT ATTCATAAAG GTAAAAAACG GCTAAGAAAA AGTAAATATA CCTAAATTTG
  AAAATTAAAT CGTGTTTTAA ATTATAGTCT AGGTCATTCT CTTGCTTAAT ACTGTACTGG
  R
  AAAATGCATA CAAGCTCCAC TACTCATCTA CTCATCTGGC CAGAGGCTGT GTCTTCTGCG
  CAGTTTATTA GAGCCCCATG GTGCTTATCA CAGTGCCAGG TAACTCTGTG AATATCAAAG
  GCTCCAAGTC GTGATTCTCA AGTTAGTATC CAAAATGGCA AACATAGTTT CAAAGCAAGG
  TGGGTTTCCA CTTACAGTAG                                            
  
  R = A/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	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
ss60794527	NES16466536	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G
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
rs48960890					SNP	G	G	G	G	G	G	A	G	G	G	G	G	G	G	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
ss60794527	NES16466536	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:126422262 () rs orientation: forward

Symbol	Name	Function Class
Cpgi687	CpG island 687	1694 bp distal
Nckap5	NCK-associated protein 5	within coordinates
Rr417489	regulatory region 417489	1794 bp distal
Rr417491	regulatory region 417491	1290 bp distal
Tssr13401	transcription start site region 13401	1801 bp upstream
Tssr13402	transcription start site region 13402	1721 bp upstream
Tssr13403	transcription start site region 13403	1677 bp upstream
Tssr13404	transcription start site region 13404	1651 bp upstream
Tssr13405	transcription start site region 13405	1574 bp upstream