rs27002275 SNP Detail

Summary

• ID
  rs27002275
• Variation Type
  SNP
• Alleles
  A/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
  Chr11:116425685 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TATTTGGCGC CCTTGAAGGC
  CAGAAGAGGG CGTAGAGATC CTCAGGAACT GGACCTGGGA GTTCGGGACC ACTGTGAGCC
  ACCTTTCTGG TGCTGGAACT GAACCTGGGT CTTGTAGAAG AGCAGCAAGT GCTCTTACCT
  ACCAAGCTCT CTCTCCAGCC CCATGTGGTG GTGTTGTGTT TTGTTTGTAG TAGAATGCCC
  W
  CGAGGACTGC TCCCACGGCC ATGCAGAGTG CTGGTGCTGC TGAACCCCCA GGGTGGCAAG
  GGCAAGGCTC TGCAGCTCTT CCAGAGCCGT GTGCAGCCCT TCCTGGAGGA GGCAGAGATA
  ACCTTTAAAC TGATACTCAC CGGTGAGTGC TGACCCCAGA GGGTGAAGGG AGCATTTCAT
  GCCAGAAAAC CAGCTCTGAG                                            
  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	WSB/EiJ
ss37246398	NES08516639	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	A	T	T	T	T	T	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	NOD/ShiLtJ	NZW/LacJ	WSB/EiJ
rs27002275					SNP	T	T	T	T	T	T	A	T	T	T	T	T	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
ss37246398	NES08516639	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:116425685 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4188	CpG island 4188	415 bp distal
Rr460328	regulatory region 460328	1924 bp distal
Rr460329	regulatory region 460329	1793 bp distal
Rr460330	regulatory region 460330	1292 bp distal
Rr460331	regulatory region 460331	1592 bp distal
Rr460332	regulatory region 460332	109 bp distal
Rr460333	regulatory region 460333	164 bp distal
Rr460334	regulatory region 460334	1414 bp proximal
Sphk1	sphingosine kinase 1	within coordinates
Sphkos	sphingosine kinase 1, opposite strand lncRNA	1782 bp upstream
Tssr3739	transcription start site region 3739	855 bp upstream
Tssr105968	transcription start site region 105968	1584 bp downstream
Tssr105969	transcription start site region 105969	1556 bp downstream
Tssr105970	transcription start site region 105970	887 bp downstream
Tssr105971	transcription start site region 105971	805 bp downstream
Tssr105972	transcription start site region 105972	790 bp downstream
Tssr111937	transcription start site region 111937	1736 bp upstream
Tssr111938	transcription start site region 111938	1150 bp upstream