rs258775889 SNP Detail

Summary

• ID
  rs258775889
• 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
  Chr11:116426639 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TACGAGCAGG TGACTAATGA
  AGACCTGCTC ATCAACTGCA CACTGCTGTT GTGCCGCCGG CGCCTGTCAC CCATGAACCT
  GCTGTCCCTG CACACTGCTT CTGGGCTGCG GCTCTATTCT GTGCTCAGTC TGTCCTGGGG
  CTTTGTTGCT GACGTGGACC TCGAGAGTGA GAAGTACAGG CGCTTGGGGG AGATTCGTTT
  Y
  ACAGTGGGCA CCTTCTTTCG CCTAGCAAGC CTGCGCATCT ACCAAGGCCA ACTGGCCTAC
  CTTCCTGTAG GAACTGTGGC CTCTAAGAGA CCCGCCTCTA CACTGGTGCA GAAGGGCCCC
  GTCGACACAC ACCTTGTTCC TCTGGAGGAG CCAGTGCCTT CTCATTGGAC TGTGGTACCA
  GAACAGGACT TCGTCCTGGT                                            
  
  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
ss384854476	MGP_WTSI_11_116397127	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	T	C	C	C	C	C	C	C	C	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
rs258775889					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	T	C	C	C	C	C	C	C	C	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
ss384854476	MGP_WTSI_11_116397127	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:116426639 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4188	CpG island 4188	1369 bp distal
Rr460332	regulatory region 460332	1063 bp distal
Rr460333	regulatory region 460333	1118 bp distal
Rr460334	regulatory region 460334	460 bp proximal
Sphk1	sphingosine kinase 1	within coordinates
Tssr3739	transcription start site region 3739	1809 bp upstream
Tssr105970	transcription start site region 105970	1841 bp downstream
Tssr105971	transcription start site region 105971	1759 bp downstream
Tssr105972	transcription start site region 105972	1744 bp downstream
Ube2o	ubiquitin-conjugating enzyme E2O	1927 bp downstream