rs238500196 SNP Detail

Summary

• ID
  rs238500196
• Variation Type
  SNP
• Alleles
  G/T

• 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
  Chr2:166555773 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGGATGCGCA CCGTCCCCGC
  CTGGGTCCCC GCCGCCGTCA CCACCACCGC TGCCGGGTGC CTCCATAGCC GCGCGGCGCC
  CGAACTTCCC GCGCCGAGGT CGCGCCGCGG CTTAGGCGTC CGGGCTCCGC ATCCCGGACA
  GGCGCCGCTC AGCGGGCCCG GGGCAGGCGG AGCGGGGGCG GGACCTGGGC GGGGTCATGG
  K
  GTATGGGCGG GGCCTTGGTA GAGAGGGCTG AGCGATGGGC GGGGAAGGAG GCGGGGTCAA
  TCTGCTAGTG GGCGGGGATC TTTGTAGAAA ATGGACGGGG TGGGGCGGCA CCTCATGCGG
  AAACTGGGCG GGGACTAATG GAGAATGGAC TGAGCTGGGG CGGAGTCTGG TGGGATTGGG
  CGGGGATTGG GCGGAGCCCC                                            
  
  K = G/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	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	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	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
ss356490289	MGP_WTSI_2_166539353	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	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	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	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
rs238500196					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T

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
ss356490289	MGP_WTSI_2_166539353	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:166555773 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12723	CpG island 12723	within coordinates
Gm57440	predicted gene, 57440	within coordinates
Prex1	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	21 bp upstream
Rr397493	regulatory region 397493	within coordinates
Rr570354	regulatory region 570354	1577 bp distal
Rr570355	regulatory region 570355	918 bp distal
Rr570356	regulatory region 570356	76 bp distal
Rr570357	regulatory region 570357	within coordinates
Tssr21773	transcription start site region 21773	248 bp upstream
Tssr27709	transcription start site region 27709	110 bp upstream
Tssr27710	transcription start site region 27710	26 bp upstream