rs27967854 SNP Detail

Summary

• ID
  rs27967854
• 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
  Chr2:74546249 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTAATCAAG GAGAGATGAG
  ATGCTCGCTT CTGGGTCACA GGCTTGTTGT CTGAGCTGGG GGTGGGGCGG TAAGAGGTAG
  CCTCAAGGAC TTTTGGACTC CTTTTTGCCT CTCCAGTGGA CGTGGCAGAA TCAACTTCTG
  ATGTCCCAGG AAGGAAGTGC CTAGTCTAGG TTTTCTAGGG CTGGTGGTGT CCCTTTTCGG
  Y
  TGTCTGGAGC TTTGTCCAGG AGGAGGCGCT GTAGGACAAG CGTCTCGCTG GCTTCGCCGA
  TGCCGCCCAT GCCCTGGGTG GGAGGGGAAT GGGAGGACAC AAGAGCCACC CGTTCTTCTG
  CCCCGCCTTC CACCTCAGCT CGCTCAGCGC TCAGCGTGCG TGGCATCAGA CAAGGGTGGG
  TGGTGTGATC ACTTGTCCGC                                            
  
  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	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss38112876	NES09259425	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	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	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27967854					SNP	T	T	T	T	T	T	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
ss38112876	NES09259425	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:74546249 () rs orientation: forward

Symbol	Name	Function Class
Cpgi11802	CpG island 11802	672 bp distal
Cpgi11803	CpG island 11803	within coordinates
Hoxd3	homeobox D3	within coordinates
Hoxd3os1	homeobox D3, opposite strand 1	within coordinates
Igs15	intergenic site 15	within coordinates
Rr44608	regulatory region 44608	49 bp distal
Rr44609	regulatory region 44609	352 bp proximal
Rr57045	regulatory region 57045	within coordinates
Rr57046	regulatory region 57046	1751 bp proximal
Tssr533	transcription start site region 533	68 bp downstream
Tssr534	transcription start site region 534	97 bp downstream
Tssr18437	transcription start site region 18437	1083 bp upstream
Tssr24624	transcription start site region 24624	1609 bp upstream
Tssr24625	transcription start site region 24625	84 bp downstream
Tssr24626	transcription start site region 24626	115 bp downstream
Tssr24627	transcription start site region 24627	219 bp downstream
Tssr24628	transcription start site region 24628	232 bp downstream