rs27002277 SNP Detail

Summary

• ID
  rs27002277
• 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
  Chr11:116425157 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCCCCTTGTC AGCGGGAGCC
  CCGGGACCTG GCTATGGAAC CAGGTTTGTG GGGTACCTGT CTGGGAAAGG CTAATGAGAT
  CTCTTCCCCC AAGAAATGAT GGACAGCAGA AAGAAGCCTA GGGTCACTCG AAAGAAACAT
  TTTGTCCCGC GAGGCCAGAC ATCGTCTGTC CCGGGGCCAA GGAAAGAGGT ATTGCGGTGT
  Y
  CCACTCACTC CCAGACAACC TGTGGGAGGC CACTTCCTCT GGCAGGGTTG TGTTGATGGG
  TGGAGGATCC CAACTGTTCC CGTAGCTCTC TTCGGCCCTC TAGCGACTGG TTGTGGACAT
  TACCATTCTG TTTTTGTTTT TCGAGGCAGG GTTTCTCTGT GTAGCCCTGG CTGTCCTGGA
  ACTCACTCTG TAGACCAGGT                                            
  
  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
ss37246400	NES08516769	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C
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
rs27002277					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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
ss37246400	NES08516769	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:116425157 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4188	CpG island 4188	within coordinates
Rr460328	regulatory region 460328	1396 bp distal
Rr460329	regulatory region 460329	1265 bp distal
Rr460330	regulatory region 460330	764 bp distal
Rr460331	regulatory region 460331	1064 bp distal
Rr460332	regulatory region 460332	within coordinates
Rr460333	regulatory region 460333	343 bp proximal
Rr460334	regulatory region 460334	1942 bp proximal
Sphk1	sphingosine kinase 1	within coordinates
Sphkos	sphingosine kinase 1, opposite strand lncRNA	1254 bp upstream
Tssr3738	transcription start site region 3738	1830 bp downstream
Tssr3739	transcription start site region 3739	327 bp upstream
Tssr105965	transcription start site region 105965	1906 bp downstream
Tssr105966	transcription start site region 105966	1853 bp downstream
Tssr105967	transcription start site region 105967	1770 bp downstream
Tssr105968	transcription start site region 105968	1056 bp downstream
Tssr105969	transcription start site region 105969	1028 bp downstream
Tssr105970	transcription start site region 105970	359 bp downstream
Tssr105971	transcription start site region 105971	277 bp downstream
Tssr105972	transcription start site region 105972	262 bp downstream
Tssr111937	transcription start site region 111937	1208 bp upstream
Tssr111938	transcription start site region 111938	622 bp upstream