rs253838899 SNP Detail

Summary

• ID
  rs253838899
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr3:51470018 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATAGAGTGAG TTCCTGGTCA
  GCCAGGGCTA CATAGAGAAA TACTGTCTCA AAGGGAAAAC CACTTAAGAG AAAAATTATG
  GAGACACTAA CCCCAAATAC CATCAGAAAT GTTAGCTCCA TTCTGACTGC GTTCGAAAGA
  GGAAGGTTGT GGATGTGGAG TTAGAAGGCT TAGGGTCCAG TCTCCTTCAC CTGCAAAGTG
  Y
  ACCAGGGTGG CCACTCTGGC AGTATGGGTT CCTCTTCTGG GCATTAGATA CTCAGGCCAT
  ATGGGGAGGG ACTTCTGTGG TTTAGGCTGG TTTACTCTTT GACCCTTTAG CCTAGGCTAC
  ACCACTGTAC ACACTGGCTC AGGCTACGCT GTCCTGAAAT CTTCCATACC CCTCTGAAGT
  CTGTCTTGGG ATTGATCTCC                                            
  
  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
ss357933075	MGP_WTSI_3_51366519	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	T	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
rs253838899					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	T	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
ss357933075	MGP_WTSI_3_51366519	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:51470018 () rs orientation: forward

Symbol	Name	Function Class
5031434O11Rik	RIKEN cDNA 5031434O11 gene	within coordinates
Cpgi13142	CpG island 13142	1032 bp distal
Rr576340	regulatory region 576340	1729 bp distal
Rr576341	regulatory region 576341	1864 bp distal
Rr576342	regulatory region 576342	1323 bp distal
Rr576343	regulatory region 576343	295 bp distal
Rr576344	regulatory region 576344	1185 bp distal
Setd7	SET domain containing (lysine methyltransferase) 7	1718 bp upstream
Tssr33226	transcription start site region 33226	1911 bp upstream
Tssr33227	transcription start site region 33227	1788 bp upstream
Tssr33228	transcription start site region 33228	1722 bp upstream
Tssr33229	transcription start site region 33229	779 bp upstream