rs27492099 SNP Detail

Summary

• ID
  rs27492099
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:129942795 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CCCAT CCATCAGGGT TTAATAAAAC
  R
  AAAAGACGAG CATCCATCAG CGGGA                                      
  
  R = A/G
  

  
  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	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37717621	NES09175356	PERLEGEN	MM_PANEL2	f	SNP	G		G	G	G	G	G		G	G	G	A		A	G	G	A		G
ss45656229	mCV22593152	ABI	CRAMUS_MOUSE	f	SNP		G	G					A		G
ss147458236	ENSMUSSNP6880248	ENSEMBL	ENSEMBL_Sanger	f	SNP		G	G							G
ss321316731	CHEV_4_129726246	CHEVERUD	SCREENING_POP	f	SNP													G					A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs27492099					SNP	G	G	G	G	G	G	G	A	G	G	G	A	G	A	G	G	A	A	G

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
ss37717621	NES09175356	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:129942795 () 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			900 bp distal
Gm12963	predicted gene 12963			580 bp upstream
Rr600421	regulatory region 600421			1254 bp distal
Rr600422	regulatory region 600422			1152 bp distal
Rr600423	regulatory region 600423			418 bp distal
Rr600424	regulatory region 600424			1091 bp proximal
Tssr1308	transcription start site region 1308			1403 bp downstream
Tssr39217	transcription start site region 39217			1613 bp downstream
Tssr39218	transcription start site region 39218			1101 bp downstream
Tssr39219	transcription start site region 39219			1073 bp downstream
Tssr39220	transcription start site region 39220			1708 bp upstream
Tssr39221	transcription start site region 39221			1739 bp upstream