rs253539688 SNP Detail

Summary

• ID
  rs253539688
• Variation Type
  SNP
• Alleles
  C/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
  Chr9:40711704 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAAAATAAAA AGGTCGCGAT
  CACTCTATCA AGGACACGGG GCTGCCGGAA ACCAGGAATG CCAGTGCCTA GCTCACCCAC
  AAAGGGACAA AAAACATTTA TCTTTCGTAC ATTTATTCCA TTAACTGATG AGTCTGGTGG
  AGCAGAGAGG GGACAGAGGT CACGCTGTCC CCTGTGGGAC AGCGGAGGTG GGGAGGGGCG
  Y
  TCGGCTCAGG GGTAAGCAGA GAGGACTGGG CCATTTCTTT GATAGAGGAT CACAAACGAT
  CCTGGGGACA TGTGGCGAGC CAGGCAGATC GAGCCTCCGC ACTGGGGGGG GGGGGAATCG
  AGGTGTCCCA TTTTGTGGGG GGTGAGGGGT GGGGAAAGCC AGCGAGATAG CGCGGCGGCT
  TAGCCTCCCA CAAGCTGGCA                                            
  
  Y = C/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	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LP/J	MA/MyJ	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss377322562	MGP_WTSI_9_40608491	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	C	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	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	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LP/J	MA/MyJ	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs253539688					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	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
ss377322562	MGP_WTSI_9_40608491	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:40711704 () rs orientation: forward

Symbol	Name	Function Class
Cpgi21602	CpG island 21602	252 bp distal
Cpgi21603	CpG island 21603	25 bp proximal
Gm57042	predicted gene, 57042	within coordinates
Hspa8	heat shock protein 8	868 bp upstream
Rr194756	regulatory region 194756	1904 bp distal
Rr206240	regulatory region 206240	within coordinates
Rr383256	regulatory region 383256	within coordinates
Tssr84478	transcription start site region 84478	1917 bp downstream
Tssr84479	transcription start site region 84479	1042 bp downstream
Tssr84480	transcription start site region 84480	302 bp downstream
Tssr84481	transcription start site region 84481	858 bp upstream
Tssr84482	transcription start site region 84482	1497 bp upstream
Tssr84483	transcription start site region 84483	1958 bp upstream
Tssr88972	transcription start site region 88972	354 bp downstream