rs27492100 SNP Detail

Summary

• ID
  rs27492100
• 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
  Chr4:129942527 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CATCCCAAGA GTCCAGCCTC
  ATATATATAT ATATATATAC ACACACACAC ACACACACAC ACACACACAC ACACACACAC
  ACGCATGCGT GAAGGCATCC TTTATTCTGT ATCCAGCAAT AAGGGAGATA AGTAAGCATG
  GCACCGTACA AAATCTGACT TGCCTAAGAA AGTACCAACA GAAGAGCCTC CTGGAGGGTG
  Y
  TCATAGTCTG GCTCTGGACA GGAGCATGTA TGTAAACTGG GCTTATCAGT TCTCATGTCT
  CTTAGCTCGC TTGCCTGCAG CTAGGTTTGA TTGCACAGTC CCGGCACCTA TGTGCCTATA
  AGCCTATGTG TATTGTATTG ATACACATGG CTTTGTGTGC TCATGATCTG CCTGTCCTAG
  AAGGGGCCAG ATGATATATG                                            
  
  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
ss37717622	NES09175355	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
rs27492100					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
ss37717622	NES09175355	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:129942527 () 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			632 bp distal
Gm12963	predicted gene 12963			312 bp upstream
Rr600421	regulatory region 600421			986 bp distal
Rr600422	regulatory region 600422			884 bp distal
Rr600423	regulatory region 600423			150 bp distal
Rr600424	regulatory region 600424			1359 bp proximal
Tssr1308	transcription start site region 1308			1135 bp downstream
Tssr39217	transcription start site region 39217			1345 bp downstream
Tssr39218	transcription start site region 39218			833 bp downstream
Tssr39219	transcription start site region 39219			805 bp downstream
Tssr39220	transcription start site region 39220			1976 bp upstream