rs236880752 SNP Detail

Summary

• ID
  rs236880752
• Variation Type
  SNP
• Alleles
  C/T

• 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
  Chr3:90421883 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAGAGGCGCC CTCTGTCTCC
  CAGGAGGGAA GGGGCTGTCC TGTGTTTCTT TCCGTTCTTG CTTGCACCAC CTCCCTGAGC
  CTAGCGGGAA GTAGGTGGAA GGGAAGGAGG TCGAGGGAAG GGTGCTATGG TGCTGGGTGC
  TGCGGTGCGG GCTGAGCAGG GAAAGGGAAG GATTCTGCCC AGGAGTGCTT AGCCTGTGCG
  Y
  CTCCGACAGG GGCTTCTGTC TCGGAACTCA GTGAAGAATT TCAATAGGAG TTCCACTATG
  GGACCCTTAG TCTGGGGCTC TCCGAGTGCC TTTGGATCTC TTTGCCTTCT CAGAAGGGGA
  TTTTTCAGTG CTGAATCCCC CAAGTATATT TTGTTTGCTT TTCTTTTTAA TCTTTTTCAA
  GCAGCAGTAG CAGTCCCTCT                                            
  
  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	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss358833710	MGP_WTSI_3_90318498	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	T	C	C	C	C	C	C	C	T	C	C	C	C
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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs236880752					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	T	C	C	C	C	C	C	C	T	C	C	C	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
ss358833710	MGP_WTSI_3_90318498	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90421883 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13466	CpG island 13466	232 bp distal
Rr375350	regulatory region 375350	507 bp downstream
Rr580384	regulatory region 580384	309 bp distal
Rr580385	regulatory region 580385	594 bp distal
Rr580386	regulatory region 580386	477 bp distal
Rr580387	regulatory region 580387	198 bp distal
Rr580388	regulatory region 580388	177 bp distal
Rr580389	regulatory region 580389	131 bp distal
Rr580390	regulatory region 580390	within coordinates
S100a1	S100 calcium binding protein A1	246 bp upstream
S100a13	S100 calcium binding protein A13	Intron
Tssr30209	transcription start site region 30209	342 bp upstream
Tssr30210	transcription start site region 30210	408 bp upstream
Tssr34242	transcription start site region 34242	242 bp upstream
Tssr34243	transcription start site region 34243	210 bp upstream
Tssr34244	transcription start site region 34244	197 bp upstream
Tssr34245	transcription start site region 34245	156 bp upstream