rs27623539 SNP Detail

Summary

• ID
  rs27623539
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:139303249 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        AAGTC AAGACTTGAT CCTTTGATGG
  R
  AGTCATGGCT GGTGTGTCTC CTAGC                                      
  
  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	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37781275	NES09137391	PERLEGEN	MM_PANEL2	f	SNP	A		A	G	G	A	G		G	G	G	G		A		A	G	G		G
ss45593049	mCV24063005	ABI	CRAMUS_MOUSE	f	SNP		A	A					A		G
ss147674730	ENSMUSSNP1545380	ENSEMBL	ENSEMBL_Sanger	f	SNP		A	A							G					A
ss321382471	CHEV_4_139131853	CHEVERUD	SCREENING_POP	f	SNP													G						G
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	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs27623539					SNP	A	A	A	G	G	A	G	A	G	G	G	G	G	A	A	A	G	G	G	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
ss37781275	NES09137391	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:139303249 () rs orientation: forward

Symbol	Name	Function Class
Cpgi15171	CpG island 15171	within coordinates
Iffo2	intermediate filament family orphan 2	Intron
Rr603244	regulatory region 603244	1208 bp distal
Rr603245	regulatory region 603245	1386 bp distal
Rr603246	regulatory region 603246	1293 bp distal
Tssr39955	transcription start site region 39955	1248 bp downstream
Tssr39956	transcription start site region 39956	1213 bp downstream