rs39053490 SNP Detail

Summary

• ID
  rs39053490
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  126
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr7:113365161 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CACAG GACCCAAGCT GGAACTGGAT
  R
  CCGAGGAAGC AGCCTCGTTG GTGGC                                      
  
  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	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss50460411	NES14119728	PERLEGEN	MM_PANEL2	f	SNP	A		A	A	A	A	G	A		A	A		G	A	A	G		A
ss145682773	ENSMUSSNP5697928	ENSEMBL	ENSEMBL_Sanger	f	SNP		A	A						G
ss322424332	CHEV_7_120909438	CHEVERUD	SCREENING_POP	f	SNP												A					G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs39053490					SNP	A	A	A	A	A	A	G	A	G	A	A	A	G	A	A	G	G	A

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
ss50460411	NES14119728	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr7:113365161 () rs orientation: forward

Symbol	Name	Function Class
Cpgi19594	CpG island 19594	within coordinates
Rr653859	regulatory region 653859	within coordinates
Rr653860	regulatory region 653860	1765 bp proximal
Spon1	spondin 1, (f-spondin) extracellular matrix protein	74 bp upstream
Tssr68625	transcription start site region 68625	129 bp downstream
Tssr68626	transcription start site region 68626	77 bp downstream
Tssr68627	transcription start site region 68627	13 bp downstream
Tssr68628	transcription start site region 68628	101 bp upstream
Tssr68629	transcription start site region 68629	120 bp upstream
Tssr68630	transcription start site region 68630	159 bp upstream
Tssr68631	transcription start site region 68631	195 bp upstream
Tssr68632	transcription start site region 68632	317 bp upstream