rs242820557 SNP Detail

Summary

• ID
  rs242820557
• 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
  Chr6:90788430 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGGATACCAC CACAGCATCA
  GAAGAGGTCC TTCCAGAAAT GTGTGTCATT AACCACAGCT GCTCATAAAG GCACCCTGGG
  GGGGTGTGGG TACTAACACC CCCACCTGTG TGCTTGTGCT TTCAAACTTC TTAAAGAGGA
  GCTGCTTTTC CCACTCTCAT ATCACAGACG AGTAAACTGA AGCTGTGATT GAGAACTGTC
  Y
  ACCCTGTGTG CACTCTGCTC TAAAGGCCCC ATCCTGGGCT GCTTCTTGTC CTCCTTTTGG
  ACCCATGACA TCCATTGTAT GCCTGTCTCT TTTCTGGCTG CTCTTCCAGA GAGGCACACA
  CATCTTGATC CTGCTGTATT TTAAAGAAGA GTGAGTGATA AAGACCTCCA CACTCAAAAA
  CAGCTGCCAA AGCTTTCAGG                                            
  
  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	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
ss369171242	MGP_WTSI_6_90761442	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	T	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	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
rs242820557					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	T	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	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
ss369171242	MGP_WTSI_6_90761442	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:90788430 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17728	CpG island 17728	1092 bp distal
Iqsec1	IQ motif and Sec7 domain 1	within coordinates
Rr634330	regulatory region 634330	1336 bp distal
Rr634331	regulatory region 634331	835 bp distal
Rr634332	regulatory region 634332	1216 bp distal
Rr634333	regulatory region 634333	773 bp proximal
Tssr62052	transcription start site region 62052	1375 bp upstream
Tssr62053	transcription start site region 62053	1354 bp upstream
Tssr62054	transcription start site region 62054	1288 bp upstream
Tssr62055	transcription start site region 62055	1229 bp upstream