rs27492091 SNP Detail

Summary

• ID
  rs27492091
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:129943655 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCAGCATGTT GACATCCTGG
  GCTCCCGGCC TGTGGGTGCT CGGGCTCTGG GCCACCTTCA GCCATGGGAC AAATATAGGT
  GAGCTGACAC AGGCCTACAT CTGACTCCCT GAGATGGTCT TTGCACATAC GTGACCATGT
  ATATCTCAGC CATTTGGCAT TTATGGGCAA GTGTAGAGGC AGAGCTCAGG TTAGCTCAGG
  Y
  GGTGTTTACG TACATGAGCC TGTGTGAGTG AGCTGGTGTG TGTGTGTGTG TGTGTGTGTG
  TGTGTGTCTT GTCTCTGTGT GTCTCTGGTT TTGCAACTTG AGAAGCTCAG TACATGCATC
  TGTATGTATT CCTGGATCTC TGGGCAGTGG GGAGGAAACA GGCTCCCTCT GAGGCGCATC
  TTTACATTTC TTGCTGTCTA                                            
  
  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
ss37717613	NES09175364	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	C	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
rs27492091					SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	C	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
ss37717613	NES09175364	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:129943655 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Col16a1	collagen, type XVI, alpha 1			Intron
				Noncoding-Transcript-Variant
Cpgi14919	CpG island 14919			1760 bp distal
Gm12963	predicted gene 12963			1440 bp upstream
Rr600423	regulatory region 600423			1278 bp distal
Rr600424	regulatory region 600424			231 bp proximal
Tssr39218	transcription start site region 39218			1961 bp downstream
Tssr39219	transcription start site region 39219			1933 bp downstream
Tssr39220	transcription start site region 39220			848 bp upstream
Tssr39221	transcription start site region 39221			879 bp upstream