rs27002279 SNP Detail

Summary

• ID
  rs27002279
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr11:116423691 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCCAGCGGCT GCATCTGGAA
  GCTAAAAGTA AAGGCACCGC GGAGGAGCAG GGGAGGAAGA GAAGTTCGCG GGTGGCGGGT
  GACCCGACCC TGGCCCAGAG TCAGGACAGC ACTAGGGTCT GGATGTGGAA TTCAGGCTAG
  GTCTAAGCGA CGCCAAAGAG GCGCTGCATC CCTACTGTGA ACAGCAGTTT CGAGGTTCAG
  Y
  AAGCGCAGAC CCACGCGTAC CCGAAGCCCG CTCGGATGCT GGGCGCCGGC ATGTGGGCTG
  CGCCCTCGCT TTCGCGCTCC GCGGATGCGC TGCTTCAGGC CGGGCTCAGA ACCCCACCTC
  TTGCGGACTT CCTAAGCTGT TCCTCCAGCA CCGGGCGCAC AATCGTATCC GGGGATCCTG
  CCCCTCATCT GCGCGTGGCC                                            
  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37246402	NES08516767	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	C	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27002279					SNP	T	T	T	T	T	T	C	T	T	T	C	T	T	C	T

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
ss37246402	NES08516767	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:116423691 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4188	CpG island 4188	within coordinates
Rr460326	regulatory region 460326	1930 bp distal
Rr460327	regulatory region 460327	944 bp distal
Rr460328	regulatory region 460328	within coordinates
Rr460329	regulatory region 460329	71 bp proximal
Rr460330	regulatory region 460330	202 bp proximal
Rr460331	regulatory region 460331	381 bp proximal
Rr460332	regulatory region 460332	1385 bp proximal
Rr460333	regulatory region 460333	1809 bp proximal
Sphk1	sphingosine kinase 1	within coordinates
Sphkos	sphingosine kinase 1, opposite strand lncRNA	within coordinates
Tssr3738	transcription start site region 3738	364 bp downstream
Tssr3739	transcription start site region 3739	1107 bp downstream
Tssr105960	transcription start site region 105960	1762 bp downstream
Tssr105961	transcription start site region 105961	1023 bp downstream
Tssr105962	transcription start site region 105962	991 bp downstream
Tssr105963	transcription start site region 105963	969 bp downstream
Tssr105964	transcription start site region 105964	851 bp downstream
Tssr105965	transcription start site region 105965	440 bp downstream
Tssr105966	transcription start site region 105966	387 bp downstream
Tssr105967	transcription start site region 105967	304 bp downstream
Tssr105968	transcription start site region 105968	392 bp upstream
Tssr105969	transcription start site region 105969	420 bp upstream
Tssr105970	transcription start site region 105970	1097 bp upstream
Tssr105971	transcription start site region 105971	1172 bp upstream
Tssr105972	transcription start site region 105972	1193 bp upstream
Tssr111937	transcription start site region 111937	204 bp downstream
Tssr111938	transcription start site region 111938	830 bp downstream