rs257504486 SNP Detail

Summary

• ID
  rs257504486
• Variation Type
  SNP
• Alleles
  A/T

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

Genome Location and Flanking Sequence

• Location
  Chr3:34703059 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTACGTCTGG ACAATGGGAG
  ATCGGCTAAA ATTACCCTCT CGGGTCCTGG GCAGGCAAGA TTCTTGAACC CCTACCCCCG
  CCCCCAGCCC ATTCTCCCAC AGCCTGGGCT TGCTTGGTGC CGGCTCCTCG GGTTCGGCGG
  GCCTTCTCTC CGCCTGCACC TGCACCTCTG GACCCCGCGC GCTTCCCAGG CCCCGGCGCC
  W
  CTCGGCCGGG CCTTCGTGAC TACCACCGTG CCTGTCAGCA GGGGCAATGC CGGCTGCGCT
  GCCCCATCCT GAGAACGCTG CGTGGGAGGG AGTTTGTGAG CGCAGCCCAA ATGCCACCTC
  CGCGCCTCGC GGTGGGATGC CAGGAAGTTG CGTGACCCTC CCCCCATCCC CTGCACTCGG
  GAGCTTCTTT CCGTTGATGC                                            
  
  W = A/T
  

  
  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
ss357517484	MGP_WTSI_3_34547832	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T
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
rs257504486					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T

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
ss357517484	MGP_WTSI_3_34547832	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:34703059 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13072	CpG island 13072	within coordinates
Gm64654	predicted gene, 64654	1089 bp downstream
Gm64662	predicted gene, 64662	within coordinates
Gm64674	predicted gene, 64674	1083 bp upstream
Rr370604	regulatory region 370604	within coordinates
Rr575165	regulatory region 575165	1933 bp distal
Rr575166	regulatory region 575166	within coordinates
Rr575167	regulatory region 575167	1006 bp distal
Rr575168	regulatory region 575168	945 bp proximal
Sox2	SRY (sex determining region Y)-box 2	1495 bp upstream
Sox2ot	SOX2 overlapping transcript (non-protein coding)	within coordinates
Tssr28821	transcription start site region 28821	1013 bp upstream
Tssr28822	transcription start site region 28822	1077 bp upstream
Tssr28823	transcription start site region 28823	1114 bp upstream
Tssr28824	transcription start site region 28824	1264 bp upstream
Tssr28825	transcription start site region 28825	1312 bp upstream
Tssr28826	transcription start site region 28826	1856 bp upstream
Tssr32975	transcription start site region 32975	421 bp upstream
Tssr32976	transcription start site region 32976	42 bp downstream
Tssr32977	transcription start site region 32977	814 bp downstream
Tssr32978	transcription start site region 32978	846 bp downstream
Tssr32979	transcription start site region 32979	937 bp downstream
Tssr32980	transcription start site region 32980	1804 bp downstream