rs48383989 SNP Detail

Summary

• ID
  rs48383989
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr13:53531277 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCACACCTA AGACCTCCCA
  CTCCCACCGA CCCCGTCTCG CCATCAGTTC CAACTGTAGT TCTGAGGACT TGCGTGTCCT
  CGGCACCCCT CCCAGGAGCT GCTTTCCCAA GACCCTGCCG GGCTCCAGGA GGCAGGTACA
  GCCAAGACCC TGTCCGCCGC GCTCCCGGGG AACACAAAGC ACTGCGGACC CGGGGCGCAG
  R
  TCGCTAGGCC TCCGCCCGCG GGCTCGCGGG AGGCTCCGGT GGCGAACGCA CCTCGTACAG
  CGCCTGCACC ATCTCCACCA GCACCCACTG CTCCGCCACT GTCGCCATGG TCAGGCAGCC
  GACTTCCGGC AGGCGGGTCG CAGCGTGTCA AATAGTGCGC GGCGCGAGCT AGTGACGCAA
  TGAAGCGGGG GGGGGGGAGA                                            
  
  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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss61805837	NES17722872	PERLEGEN	MM_PANEL2	f	SNP	A	A	G	A	A	A	A	A	A	A		A	G	G	A		A
ss324341584	CHEV_13_53472610	CHEVERUD	SCREENING_POP	f	SNP											A					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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs48383989					SNP	A	A	G	A	A	A	A	A	A	A	A	A	G	G	A	G	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
ss61805837	NES17722872	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:53531277 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi5620	CpG island 5620			within coordinates
Rr403780	regulatory region 403780			61 bp upstream
Rr480032	regulatory region 480032			146 bp proximal
Sptlc1	serine palmitoyltransferase, long chain base subunit 1			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Tssr122583	transcription start site region 122583			114 bp downstream