rs259555798 SNP Detail

Summary

• ID
  rs259555798
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr1:153363291 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTAGGGCCA CGGGAGCTCC
  GCTGCGCGAG GCGCCCACGG CCCGTAAATC CGGGTACCCG CCGCGCTGCC CCTCCCCCAC
  ACGCTCGCCC GCCCGCGCCT CACAACAAAG CCACGGCTGA GCCGCGGAGG CCGGCGTCGG
  CCCGCAGCAA TGAGCCCGCG TCCGGGGCCG CAACGCCCCC TTTCTTACCC TCCTCCGCTT
  Y
  TCCGTGCCCG AGAGCACAGC CTTCTTAGGC GAGTTCGCAG CGCCAACCTT CCACGAGAAC
  GGCGAAAGAA CACACCTCAC CCGCATGGAA GCAGCGGCGA AATGGCTCCG ACTGCAGGAC
  CCAGGGGGCG GAGTCGGCGA CTCGCGCCTG CGCGGTAGGC CAACTCCGGA GCCAGCACGC
  CCCGAGGGGG CGGGGCTTGA                                            
  
  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
ss351973727	MGP_WTSI_1_155334675	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
rs259555798					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
ss351973727	MGP_WTSI_1_155334675	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:153363291 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi867	CpG island 867			within coordinates
Dhx9	DExH-box helicase 9			mRNA-UTR
				Noncoding-Transcript-Variant
Rr396394	regulatory region 396394			within coordinates
Rr396395	regulatory region 396395			1553 bp upstream
Rr420682	regulatory region 420682			within coordinates
Rr420683	regulatory region 420683			1292 bp distal
Rr420684	regulatory region 420684			10 bp distal
Rr420685	regulatory region 420685			53 bp proximal
Rr420686	regulatory region 420686			1375 bp proximal
Tssr9459	transcription start site region 9459			624 bp downstream
Tssr9460	transcription start site region 9460			231 bp upstream
Tssr14270	transcription start site region 14270			94 bp downstream
Tssr14271	transcription start site region 14271			126 bp downstream
Tssr14272	transcription start site region 14272			139 bp downstream