rs48085248 SNP Detail

Summary

• ID
  rs48085248
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:90520333 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTCCCCCTCA CACTGATGCT
  AACTTTAAGG ACACTGCTCT CGGGCTGGCA GAAGGTTCAG CACACAAGCC AGAGTTTCGA
  GTCACGTGCC AGAAGGGAAA ACTAAACACG GAATTAGAGA AAACTTGATG CCTCTGGCTT
  GCACTGGTCT CCTTTGGGCC CGTTAGGGCC CGCTAAACTC CCTCATTCCG CTCCTAATCC
  Y
  GGACAGTCCA GGCAACAGGG GCGTGGAAAG TTGAGGGGGC TGGGATGTTC GTTTGCCTTG
  CCTCAGGCGC TGGGTGGGGT CGGGGCGTGC CAGCACTCCC TGGGCGGACC TCACGGATGC
  TGGCCACTAT AAGGCCGGCC AGACTGCGAC ACATTCCATC CCCTCGACCA CTCCTTTGGC
  GCTTCGCTGT CGACCGTGCG                                            
  
  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
ss60424276	NES15923468	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T
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
rs48085248					SNP	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T

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
ss60424276	NES15923468	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90520333 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13468	CpG island 13468	within coordinates
Gm57853	predicted gene, 57853	158 bp upstream
Rr580416	regulatory region 580416	643 bp distal
Rr580417	regulatory region 580417	within coordinates
Rr580418	regulatory region 580418	217 bp distal
S100a5	S100 calcium binding protein A5	1246 bp downstream
S100a6	S100 calcium binding protein A6 (calcyclin)	mRNA-UTR
Tssr30242	transcription start site region 30242	730 bp downstream
Tssr30243	transcription start site region 30243	161 bp downstream
Tssr30244	transcription start site region 30244	145 bp downstream
Tssr30245	transcription start site region 30245	47 bp downstream
Tssr30246	transcription start site region 30246	120 bp upstream
Tssr30247	transcription start site region 30247	150 bp upstream
Tssr30248	transcription start site region 30248	256 bp upstream
Tssr30249	transcription start site region 30249	493 bp upstream
Tssr30250	transcription start site region 30250	702 bp upstream
Tssr30251	transcription start site region 30251	749 bp upstream
Tssr30252	transcription start site region 30252	1320 bp upstream
Tssr30253	transcription start site region 30253	1344 bp upstream
Tssr34246	transcription start site region 34246	1385 bp downstream