rs227962909 SNP Detail

Summary

• ID
  rs227962909
• 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
  Chr1:93270335 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTTTAAATCT TTAACCACAT
  AAAAAGCCAG ACGTGGCTAC ACATAACTGT AATCCCGAAA TTAGGGGGTG AAGATAAGTG
  ACTCCCCAGA GCTCACTGGC CCGCTAGTCT AACCTTAAAG CAAAGCTTCC AGTTCAATCA
  GAGGCTTTCG GGCGCTGGCG GCTCTTGAGC GCGGGTCAAA CGGCCAGAAC CCGCCACCAC
  Y
  CTGGGGCCGG GGCTGGGCGG AGGGAGTGCG GGCGCGCGAG GAAAGGGCCA GAGCCACTCC
  ACGACAATGC GTAACTAACA CTCGCCGCCA CCCGGAGGTT TTTCGAAGGC TGGTGTCTCA
  CCCCAGGCTG GCGCAAGTCT CAGTCGGATT CACAACGTGA AGATCCGCGC GCTTCTGGCC
  CACCGACCAA TCGCAGAACG                                            
  
  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
ss350517925	MGP_WTSI_1_95239190	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	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	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	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
rs227962909					SNP	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	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
ss350517925	MGP_WTSI_1_95239190	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:93270335 () rs orientation: forward

Symbol	Name	Function Class
Cpgi598	CpG island 598	within coordinates
Pask	PAS domain containing serine/threonine kinase	within coordinates
Ppp1r7	protein phosphatase 1, regulatory subunit 7	1015 bp upstream
Rr29849	regulatory region 29849	within coordinates
Rr366968	regulatory region 366968	48 bp upstream
Rr396176	regulatory region 396176	810 bp upstream
Tssr163	transcription start site region 163	1069 bp upstream
Tssr8169	transcription start site region 8169	1005 bp upstream
Tssr13015	transcription start site region 13015	41 bp upstream
Tssr13016	transcription start site region 13016	16 bp upstream
Tssr13017	transcription start site region 13017	within coordinates
Tssr13018	transcription start site region 13018	9 bp downstream
Tssr13019	transcription start site region 13019	121 bp downstream
Tssr13020	transcription start site region 13020	255 bp downstream
Tssr13021	transcription start site region 13021	288 bp downstream
Tssr13022	transcription start site region 13022	885 bp downstream