rs229516518 SNP Detail

Summary

• ID
  rs229516518
• Variation Type
  SNP
• Alleles
  A/C

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

Genome Location and Flanking Sequence

• Location
  Chr3:80711585 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        TGTTTCTCAT GAAAATGAGA AGGAATGAAG AAAAGCAAAA
  AAGCAAAGTA ATACCCGTGA CTTCCAAATA TTGTAAGCTT GTGATTTTAA GTCATTCTCC
  M
  CCCCCTCTGT TACTCACTCT CTTTCTCCTC CCCTGTTTCC CCCTCTGTCT GTGTTTGTGT
  GTGTGTGTGT GTGTGTGTGT GTGTGTGTGT GTGTGTGCG                       
  
  M = A/C
  

  
  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	B10.RIII-H2 H2-T18/(71NS)SnJ	BTBR T<+> Itpr3/J	BUB/BnJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CZECHII/EiJ	I/LnJ	JF1/MsJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	PWK/PhJ	RF/J	RIIIS/J	SM/J	SPRET/EiJ	ST/bJ	WSB/EiJ
ss358616747	MGP_WTSI_3_80608200	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	C	C	A	C	C	A	A	A	A	C	A	A	A	C	A	A
SNP Consensus Information
SNP					Consensus Type	B10.RIII-H2 H2-T18/(71NS)SnJ	BTBR T<+> Itpr3/J	BUB/BnJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CZECHII/EiJ	I/LnJ	JF1/MsJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	PWK/PhJ	RF/J	RIIIS/J	SM/J	SPRET/EiJ	ST/bJ	WSB/EiJ
rs229516518					SNP	A	A	A	A	A	A	A	A	A	A	C	C	A	C	C	A	A	A	A	C	A	A	A	C	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
ss358616747	MGP_WTSI_3_80608200	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:80711585 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13281	CpG island 13281	1110 bp distal
Gm66511	predicted gene, 66511	within coordinates
Gria2	glutamate receptor, ionotropic, AMPA2 (alpha 2)	1443 bp upstream
Rr578666	regulatory region 578666	953 bp distal
Rr578667	regulatory region 578667	1174 bp proximal
Rr578668	regulatory region 578668	1255 bp proximal
Tssr33765	transcription start site region 33765	1677 bp upstream
Tssr33766	transcription start site region 33766	1661 bp upstream
Tssr33767	transcription start site region 33767	1634 bp upstream
Tssr33768	transcription start site region 33768	1606 bp upstream
Tssr33769	transcription start site region 33769	1548 bp upstream
Tssr33770	transcription start site region 33770	1508 bp upstream
Tssr33771	transcription start site region 33771	1438 bp upstream