rs263601349 SNP Detail

Summary

• ID
  rs263601349
• Variation Type
  SNP
• Alleles
  C/G

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:34704516 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCAAAAACTA ATCACAACAA
  TCGCGGCGGC CCGAGGAGGA GAGCGCCTGT TTTTTCATCC CAATTGCACT TCGCCCGTCT
  CGAGCTCCGC TTCCCCCCAA CTATTCTCCG CCAGATCTCC GCGCAGGGCC GTGCACGCCG
  AGGCCCCCGC CCGCGGCCCC TGCATCCCGG CCCCCGAGCG CGGCCCCCAC AGTCCCGGCC
  S
  GGCCGAGGGT TGGCGGCCGC CGGCGGGCCG CGCCCGCCCA GCGCCCGCAT GTATAACATG
  ATGGAGACGG AGCTGAAGCC GCCGGGCCCG CAGCAAGCTT CGGGGGGCGG CGGCGGAGGA
  GGCAACGCCA CGGCGGCGGC GACCGGCGGC AACCAGAAGA ACAGCCCGGA CCGCGTCAAG
  AGGCCCATGA ACGCCTTCAT                                            
  
  S = C/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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	SWR/J	WSB/EiJ
ss357517498	MGP_WTSI_3_34549289	EVA_MGPV3	EVA_MGPV3	f	SNP	G	C	G	G	G	G	G	G	C	G	G	G	G	C	C	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	SWR/J	WSB/EiJ
rs263601349					SNP	G	C	G	G	G	G	G	G	C	G	G	G	G	C	C	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	C	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
ss357517498	MGP_WTSI_3_34549289	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:34704516 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13072	CpG island 13072	within coordinates
Gm64654	predicted gene, 64654	within coordinates
Gm64662	predicted gene, 64662	502 bp upstream
Gm64674	predicted gene, 64674	36 bp downstream
Rr370604	regulatory region 370604	135 bp downstream
Rr575166	regulatory region 575166	513 bp distal
Rr575168	regulatory region 575168	within coordinates
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	433 bp downstream
Tssr28822	transcription start site region 28822	362 bp downstream
Tssr28823	transcription start site region 28823	317 bp downstream
Tssr28824	transcription start site region 28824	178 bp downstream
Tssr28825	transcription start site region 28825	134 bp downstream
Tssr28826	transcription start site region 28826	399 bp upstream
Tssr28827	transcription start site region 28827	704 bp upstream
Tssr32975	transcription start site region 32975	1878 bp upstream
Tssr32976	transcription start site region 32976	1404 bp upstream
Tssr32977	transcription start site region 32977	632 bp upstream
Tssr32978	transcription start site region 32978	598 bp upstream
Tssr32979	transcription start site region 32979	492 bp upstream
Tssr32980	transcription start site region 32980	347 bp downstream
Tssr32981	transcription start site region 32981	669 bp downstream