rs27967853 SNP Detail

Summary

• ID
  rs27967853
• 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
  Chr2:74546738 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAGAGGGGGC GTTATTTCCT
  CATTCTGTAC TCTAGGAACA GGCAACCAGA TTTTGTGATA GAGCAAGCTG TTCCTAAACC
  TCAGGGCCCC AGTGAGAAGC AGCACCCCAT GAACAGCTTC AGTTCTTGCC TTTCACTTGT
  CCCAAGTTCC TAGTACCCAG GACAGGCAGC TTGGGGAAGC ACAGCATGGA TGGAGACCCT
  Y
  TCTAGCAAGG CAACTGACCT CCTCCTGCTA ATTTAGAACA GCGCCTGGGC CCTGTGACAC
  ATTTCTGACT CTCTGAAAGT CTGAGGCAAT CCCACCTGCA CCCCATAGCT TGCGAATCAT
  GCTGGTGTGT GGACTTCTGT CCCCAACACT CCTGCCTCAC CACTGTGCTC GTCGCAGGCC
  TACTGTGTGG TTCGCCGGCT                                            
  
  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
ss38112875	NES09259426	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
rs27967853					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
ss38112875	NES09259426	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:74546738 () rs orientation: forward

Symbol	Name	Function Class
Cpgi11802	CpG island 11802	1161 bp distal
Cpgi11803	CpG island 11803	175 bp distal
Hoxd3	homeobox D3	within coordinates
Hoxd3os1	homeobox D3, opposite strand 1	264 bp upstream
Igs15	intergenic site 15	within coordinates
Rr44608	regulatory region 44608	538 bp distal
Rr44609	regulatory region 44609	within coordinates
Rr57045	regulatory region 57045	within coordinates
Rr57046	regulatory region 57046	1262 bp proximal
Tssr533	transcription start site region 533	418 bp upstream
Tssr534	transcription start site region 534	387 bp upstream
Tssr18437	transcription start site region 18437	594 bp upstream
Tssr24625	transcription start site region 24625	394 bp upstream
Tssr24626	transcription start site region 24626	367 bp upstream
Tssr24627	transcription start site region 24627	259 bp upstream
Tssr24628	transcription start site region 24628	237 bp upstream