rs254238307 SNP Detail

Summary

• ID
  rs254238307
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr3:34703398 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCCAGGAAGT TGCGTGACCC
  TCCCCCCATC CCCTGCACTC GGGAGCTTCT TTCCGTTGAT GCTTTCGTCC CCAAGGTTTC
  CTCTGAAACT GCCACCACTA AAAATCCTCT TGTGTCAGGG TTGGGAGTTA GAAAGAGCGG
  GAGCAGAGTT CCAGCTTTGC CTTTGCACCC TTTGGATGGG GCAGGTTGGT GGAGTAGGGA
  M
  TTAGGGGTTG AGGACACGTG CTGCGGTTCC TTGAGCCACA CCTGAGTCGG CCTAGGAAAA
  GGCTGGGAAC AAGGCCTGGT CCTAGCTCTG CTCTACAGTC AGCTACATGG GCAGAGGACT
  CGTGTTTGGG AACCGAGCCG ATGACACGGA AGCCAGGAGG GCGCTGAGGC CCGAGGCTTG
  GGTCTAACTT CTCGTCTGTA                                            
  
  M = A/C
  

  
  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
ss357517489	MGP_WTSI_3_34548171	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A
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
rs254238307					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	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
ss357517489	MGP_WTSI_3_34548171	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:34703398 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13072	CpG island 13072	within coordinates
Gm64654	predicted gene, 64654	750 bp downstream
Gm64662	predicted gene, 64662	within coordinates
Gm64674	predicted gene, 64674	744 bp upstream
Rr370604	regulatory region 370604	within coordinates
Rr575166	regulatory region 575166	within coordinates
Rr575167	regulatory region 575167	1345 bp distal
Rr575168	regulatory region 575168	606 bp proximal
Sox2	SRY (sex determining region Y)-box 2	1156 bp upstream
Sox2ot	SOX2 overlapping transcript (non-protein coding)	within coordinates
Tssr28821	transcription start site region 28821	674 bp upstream
Tssr28822	transcription start site region 28822	738 bp upstream
Tssr28823	transcription start site region 28823	775 bp upstream
Tssr28824	transcription start site region 28824	925 bp upstream
Tssr28825	transcription start site region 28825	973 bp upstream
Tssr28826	transcription start site region 28826	1517 bp upstream
Tssr28827	transcription start site region 28827	1822 bp upstream
Tssr32975	transcription start site region 32975	760 bp upstream
Tssr32976	transcription start site region 32976	286 bp upstream
Tssr32977	transcription start site region 32977	475 bp downstream
Tssr32978	transcription start site region 32978	507 bp downstream
Tssr32979	transcription start site region 32979	598 bp downstream
Tssr32980	transcription start site region 32980	1465 bp downstream
Tssr32981	transcription start site region 32981	1787 bp downstream