rs235897509 SNP Detail

Summary

• ID
  rs235897509
• 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
  Chr11:116425275 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TAGGGTCACT CGAAAGAAAC
  ATTTTGTCCC GCGAGGCCAG ACATCGTCTG TCCCGGGGCC AAGGAAAGAG GTATTGCGGT
  GTCCCACTCA CTCCCAGACA ACCTGTGGGA GGCCACTTCC TCTGGCAGGG TTGTGTTGAT
  GGGTGGAGGA TCCCAACTGT TCCCGTAGCT CTCTTCGGCC CTCTAGCGAC TGGTTGTGGA
  Y
  ATTACCATTC TGTTTTTGTT TTTCGAGGCA GGGTTTCTCT GTGTAGCCCT GGCTGTCCTG
  GAACTCACTC TGTAGACCAG GTTGGCCTTG AACTCAGAAA TCCGCCTGCC TCTGCCTCCC
  GAGTGCTGGG ATTAAAGGCG TGCGCCACCA TGCCCGGCCG TGTTTAAGTG TTTTGACAGA
  ACACTTATAT GTATAAGCAC                                            
  
  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
ss384854440	MGP_WTSI_11_116395763	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	C	C	C	C	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
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
rs235897509					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	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

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
ss384854440	MGP_WTSI_11_116395763	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:116425275 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4188	CpG island 4188	5 bp distal
Rr460328	regulatory region 460328	1514 bp distal
Rr460329	regulatory region 460329	1383 bp distal
Rr460330	regulatory region 460330	882 bp distal
Rr460331	regulatory region 460331	1182 bp distal
Rr460332	regulatory region 460332	within coordinates
Rr460333	regulatory region 460333	225 bp proximal
Rr460334	regulatory region 460334	1824 bp proximal
Sphk1	sphingosine kinase 1	within coordinates
Sphkos	sphingosine kinase 1, opposite strand lncRNA	1372 bp upstream
Tssr3738	transcription start site region 3738	1948 bp downstream
Tssr3739	transcription start site region 3739	445 bp upstream
Tssr105966	transcription start site region 105966	1971 bp downstream
Tssr105967	transcription start site region 105967	1888 bp downstream
Tssr105968	transcription start site region 105968	1174 bp downstream
Tssr105969	transcription start site region 105969	1146 bp downstream
Tssr105970	transcription start site region 105970	477 bp downstream
Tssr105971	transcription start site region 105971	395 bp downstream
Tssr105972	transcription start site region 105972	380 bp downstream
Tssr111937	transcription start site region 111937	1326 bp upstream
Tssr111938	transcription start site region 111938	740 bp upstream