rs48849249 SNP Detail

Summary

• ID
  rs48849249
• Variation Type
  SNP
• Alleles
  A/G

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

Genome Location and Flanking Sequence

• Location
  Chr3:34708885 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        AGAAAAGAGA TAAAGTCATG ATTCTACCCA GAGAGGACTT
  GCTGATGTCG CTGCCTGTGA CTTCTTTCCG AGGAATTTTA TTCTGGTCAG TGAGGCCTTC
  R
  TTTTCAGTCA AGAGGGGAAT TTAAGTGTTG CTTTGACTTT ATACACAGAC TAGAAATCTG
  TAACAGGACG AGCATATAAC CAGTTCTTAC TACATCTTTT                      
  
  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
ss60385755	NES15886435	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A	G	A	A	A	A	A	A	A	A
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
rs48849249					SNP	A	A	A	A	A	A	G	A	A	A	A	A	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
ss60385755	NES15886435	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:34708885 () rs orientation: forward

Symbol	Name	Function Class
Gm54566	predicted gene, 54566	1451 bp downstream
Rr439	regulatory region 439	652 bp distal
Rr366704	regulatory region 366704	within coordinates
Rr575169	regulatory region 575169	1818 bp distal
Rr575170	regulatory region 575170	172 bp distal
Rr575171	regulatory region 575171	810 bp proximal
Sox2ot	SOX2 overlapping transcript (non-protein coding)	within coordinates
Tssr28828	transcription start site region 28828	1143 bp downstream
Tssr32982	transcription start site region 32982	728 bp upstream