rs252708858 SNP Detail

Summary

• ID
  rs252708858
• Variation Type
  SNP
• Alleles
  A/G

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

Genome Location and Flanking Sequence

• Location
  Chr3:88998481 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGGGCGGGAA AGAGAGGAGC
  AAAGAGTTAG TCCCTTCACT CCAAGATCCA CCCAGTTTCC CTTTCCCAGA GCGCGCCCTG
  GAGATGGGGC GGGAAGGACA CTGCAGAAGG AGGGGACCAG GGGCGGGCTC AGGACCCGCC
  CTCCTGCGGG TCCGCGCTTC TTACCCACGG CGTGCGCGCG CGGTTCCTCC GGCTCCTGCG
  R
  GGCGGATGCC TCCTCACCAG CCCGGGGGCT GGCCGCCCTG CCCTCCTCCG ACAGCCCCTC
  TGCAATAGGC TGCAGCCCAA GTCGATTTTT CTTCCTCCGC GGAGGGACGG GTGGGGGAGG
  CGGTCGAGGC GGGACCAAAG CCCACCCAGC CGGGGGGTCC CGGGGCGGGA CTGGCGGAGG
  CTGGGCTCGG CTTCTCGACC                                            
  
  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	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss358806300	MGP_WTSI_3_88895096	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	G	A	A	A	A	G	G	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	A	A	A	G	A	A	A	A
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs252708858					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	G	A	A	A	A	G	G	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	A	A	A	G	A	A	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
ss358806300	MGP_WTSI_3_88895096	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:88998481 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13396	CpG island 13396	within coordinates
Cpgi13397	CpG island 13397	1881 bp proximal
Gm65858	predicted gene, 65858	1041 bp downstream
Rr397780	regulatory region 397780	957 bp downstream
Rr579943	regulatory region 579943	639 bp distal
Rr579944	regulatory region 579944	316 bp distal
Rusc1	RUN and SH3 domain containing 1	Coding-NonSynonymous
Tssr34080	transcription start site region 34080	1505 bp upstream
Tssr34081	transcription start site region 34081	1458 bp upstream
Tssr34082	transcription start site region 34082	1415 bp upstream
Tssr34083	transcription start site region 34083	1304 bp upstream
Tssr34084	transcription start site region 34084	1166 bp upstream
Tssr34085	transcription start site region 34085	356 bp downstream