rs579833798 SNP Detail

Summary

• ID
  rs579833798
• Variation Type
  SNP
• Alleles
  A/G

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

Genome Location and Flanking Sequence

• Location
  Chr3:34705656 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        GGAAA AAAAATCTCC GCAGCGAAAC
  R
  ACAGCTGCGG AAAAAAACCA CCAAT                                      
  
  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	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss916027606	MGP_WTSI_3_34651507	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs579833798					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	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
ss916027606	MGP_WTSI_3_34651507	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:34705656 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13072	CpG island 13072	within coordinates
Gm54566	predicted gene, 54566	1671 bp upstream
Gm64654	predicted gene, 64654	within coordinates
Gm64662	predicted gene, 64662	1642 bp upstream
Gm64674	predicted gene, 64674	1176 bp downstream
Rr366704	regulatory region 366704	1725 bp upstream
Rr370604	regulatory region 370604	1275 bp downstream
Rr575166	regulatory region 575166	1653 bp distal
Rr575168	regulatory region 575168	1092 bp distal
Rr575169	regulatory region 575169	944 bp proximal
Rr575170	regulatory region 575170	1412 bp proximal
Sox2	SRY (sex determining region Y)-box 2	mRNA-UTR
Sox2ot	SOX2 overlapping transcript (non-protein coding)	within coordinates
Tssr28821	transcription start site region 28821	1573 bp downstream
Tssr28822	transcription start site region 28822	1502 bp downstream
Tssr28823	transcription start site region 28823	1457 bp downstream
Tssr28824	transcription start site region 28824	1318 bp downstream
Tssr28825	transcription start site region 28825	1274 bp downstream
Tssr28826	transcription start site region 28826	727 bp downstream
Tssr28827	transcription start site region 28827	425 bp downstream
Tssr32977	transcription start site region 32977	1772 bp upstream
Tssr32978	transcription start site region 32978	1738 bp upstream
Tssr32979	transcription start site region 32979	1632 bp upstream
Tssr32980	transcription start site region 32980	787 bp upstream
Tssr32981	transcription start site region 32981	460 bp upstream