rs31241509 SNP Detail

Summary

• ID
  rs31241509
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:121914314 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        CATCAAAAGC CTTTCCTGGT GGTGGAAGTT ACCTAATCAC
  GCCCGGGCTG ATGGGCAGGG TACATAAGAC TCCTTTCCCT GGCCTTTGCT GCTTTGTCCT
  Y
  ACTCTTGAAC TAATTCTCCT AATGTTTCTC ATCCCTGACT GTATGCATGG CTTGGGTTTA
  GAGAGGCACA CAGACTCCGA TTTAGCCTGA TGTTGGCAC                       
  
  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	129X1/SvJ	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	SM/J	WSB/EiJ
ss45512476	mCV23892380	ABI	CRAMUS_MOUSE	f	SNP		C	C						T
ss51021748	NES13907550	PERLEGEN	MM_PANEL2	f	SNP	C		C	C	C	T	C	C	T	C	C		T	C	C		C
ss320908566	CHEV_3_121823583	CHEVERUD	SCREENING_POP	f	SNP												C				T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	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	SM/J	WSB/EiJ
rs31241509					SNP	C	C	C	C	C	T	C	C	T	C	C	C	T	C	C	T	C

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
ss51021748	NES13907550	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:121914314 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Abca4	ATP-binding cassette, sub-family A member 4			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Gm40138	predicted gene, 40138			within coordinates
Rr397978	regulatory region 397978			1427 bp upstream
Rr584235	regulatory region 584235			1507 bp distal
Rr584236	regulatory region 584236			730 bp distal
Rr584237	regulatory region 584237			1202 bp proximal
Rr584238	regulatory region 584238			1518 bp proximal
Rr584239	regulatory region 584239			1746 bp proximal