rs48988909 SNP Detail

Summary

• ID
  rs48988909
• 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
  Chr3:131136297 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTTATTGTTC CTTCTACGAA
  CGAGACAAAA GGAGGTCAGA AATGGCTTGT CTAATTACCA ACCATGTGAA ATATTAACAT
  ACTTGAGGTA AGGAAACGAG TATCAAAGGT GCCTGCTTTA CAAAGGTATC CTCAGAACAC
  AGTCAAGAAT GCTGAGATTG GATTTATTTA TAAGGTGCTA GATTGCTTAA TCTTCGAATG
  Y
  TTGTCTCTCT TTGAGCTGAT GTCAGCATGG ATAAGAGCAA CTCATCAATC AACTCCCAGT
  TAACGCCTTC CAATAAAGCC GGGACTTAGG TACTTAACAT TTCGGACACT TCACAAGTTG
  CTAACCATGA AGTCACAATT CACCAGAACC TGCCAGGAGC CCGCACCACG CCTTCCTGAT
  GCTGGCTCTT GTCTAAGAAG                                            
  
  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	WSB/EiJ
ss61080892	NES16597369	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	C	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	WSB/EiJ
rs48988909					SNP	T	T	T	T	T	T	C	T	T	T	C	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
ss61080892	NES16597369	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:131136297 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm66385	predicted gene, 66385			188 bp upstream
Rr375745	regulatory region 375745			1924 bp downstream
Rr585340	regulatory region 585340			within coordinates
Rr585341	regulatory region 585341			662 bp proximal
Sgms2	sphingomyelin synthase 2			Intron
				Noncoding-Transcript-Variant
Tssr35690	transcription start site region 35690			841 bp downstream