rs260844161 SNP Detail

Summary

• ID
  rs260844161
• 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
  Chr3:115509453 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTTCCCCTCT CTCAGCTGAC
  CGCAAAGCCA GGCGGTGTGC CCCAGATTCT GGGAAGCTCA GAGGCCTTTG AGGAGGTGGG
  CTGCTGCCCT GGCCTCAGAG ATTTAAACAA TCCAGCAGCA GTTCAGGAAT GTCCACAGGG
  GAAAGAGGTT GCCTGTCCTT TCACTGGCCA GTGCCTACAG CCCCCTGCCT AAAGCTGGAC
  Y
  CCTCTTCTCT CCCTGTCTAC GTAGAGATAA CTAAGAGATC CCCAAATCTA AGGAATTGCA
  CCTTGTCCAC ATTTTTCTAC TGTTAGATAA TGCTAGATTG AGGCTGAAGA GGCCTTGGTC
  AGATTTGTCT GAGTAGCAGA TGGAGGCCTT TATGCCTTGT CTGTCTGTCC TTCTGTTAAA
  AAGTGGTTCC ACCCAAGTCC                                            
  
  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	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss359333890	MGP_WTSI_3_115418722	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	C	C	C	T	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C	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	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs260844161					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C	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
ss359333890	MGP_WTSI_3_115418722	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:115509453 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13725	CpG island 13725	256 bp distal
Gm9889	predicted gene 9889	within coordinates
Rr397956	regulatory region 397956	128 bp upstream
S1pr1	sphingosine-1-phosphate receptor 1	749 bp upstream
Tssr31332	transcription start site region 31332	632 bp downstream
Tssr35277	transcription start site region 35277	1998 bp upstream
Tssr35278	transcription start site region 35278	1007 bp upstream
Tssr35279	transcription start site region 35279	991 bp upstream
Tssr35280	transcription start site region 35280	941 bp upstream
Tssr35281	transcription start site region 35281	885 bp upstream
Tssr35282	transcription start site region 35282	857 bp upstream
Tssr35283	transcription start site region 35283	742 bp upstream