rs260248322 SNP Detail

Summary

• ID
  rs260248322
• Variation Type
  SNP
• Alleles
  A/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
  Chr11:116423406 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAGGGGTGGG GAGGTTGGGA
  CCACGCCCCC ATGCTAGCCT CTCCAATCCT GATGAGAGCC CCCATTGCCC TGTCCACACT
  GCTGGGTTCC TCCAGTCGGT GAGGATCGTG GATCCCGATC ATCCGCGGCA GGCAGCATCT
  CAGGCCTTGA TAGTGTTCCC TGGGGGGAAA GACTCCACCT TTGGAGGTTG CTGACGAGGT
  W
  CTCTCATCTC GACTTCGTCC CCAAACCGGT TCAGCTTTCT CCTGAAAGGC GTGCCAGACT
  GCTTCGGGTT CGGCGTCTGA GTGAGCCAGC GGCTGCATCT GGAAGCTAAA AGTAAAGGCA
  CCGCGGAGGA GCAGGGGAGG AAGAGAAGTT CGCGGGTGGC GGGTGACCCG ACCCTGGCCC
  AGAGTCAGGA CAGCACTAGG                                            
  
  W = A/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
ss384854412	MGP_WTSI_11_116393894	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	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs260248322					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	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
ss384854412	MGP_WTSI_11_116393894	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:116423406 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4188	CpG island 4188	within coordinates
Rr460326	regulatory region 460326	1645 bp distal
Rr460327	regulatory region 460327	659 bp distal
Rr460328	regulatory region 460328	within coordinates
Rr460329	regulatory region 460329	356 bp proximal
Rr460330	regulatory region 460330	487 bp proximal
Rr460331	regulatory region 460331	666 bp proximal
Rr460332	regulatory region 460332	1670 bp proximal
Sphk1	sphingosine kinase 1	within coordinates
Sphkos	sphingosine kinase 1, opposite strand lncRNA	within coordinates
Tssr3738	transcription start site region 3738	79 bp downstream
Tssr3739	transcription start site region 3739	1392 bp downstream
Tssr105960	transcription start site region 105960	1477 bp downstream
Tssr105961	transcription start site region 105961	738 bp downstream
Tssr105962	transcription start site region 105962	706 bp downstream
Tssr105963	transcription start site region 105963	684 bp downstream
Tssr105964	transcription start site region 105964	566 bp downstream
Tssr105965	transcription start site region 105965	155 bp downstream
Tssr105966	transcription start site region 105966	102 bp downstream
Tssr105967	transcription start site region 105967	19 bp downstream
Tssr105968	transcription start site region 105968	677 bp upstream
Tssr105969	transcription start site region 105969	705 bp upstream
Tssr105970	transcription start site region 105970	1382 bp upstream
Tssr105971	transcription start site region 105971	1457 bp upstream
Tssr105972	transcription start site region 105972	1478 bp upstream
Tssr111937	transcription start site region 111937	489 bp downstream
Tssr111938	transcription start site region 111938	1115 bp downstream