rs259474449 SNP Detail

Summary

• ID
  rs259474449
• 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
  Chr1:90979941 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAATTCCACA GCCCTTGCCG
  TTACGGTGTT ATCCAAAACT ATTCTCTCTG ATTGATAGAG CTTTGTTTGT AAACTGTGAT
  GCTGAAACCA ACTGCTGGGA GCAGGTCTTC TCCTTCCCAG GAAGTTTTCC TCATCTGAAA
  CACTTCACCA AAGCTTGGTA CCCATTTTCT TTCGGCCTGC ATAGTACTCC TCAAACTAGG
  Y
  CCCCTTCATC CCTTTGGTCC AGGCCATCCT GCCCCCTAGA ACTCGTCTTT CTGTGTCTAC
  TCTCTGGTCT ACCCAGTCCT TCGAAGCACT ACCCAGAGAC TTAGTACCAG AATGCTGCTG
  CCCCACATGT GCATAAGCCA GCGCACACTG GTTCCTTGTT ACCAAAAAAG CGTGTCAGCC
  GGGCTCAGAT GTGACTGGCT                                            
  
  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
ss350468143	MGP_WTSI_1_92948796	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	C	T	T	T	T	T	T	T	T	T	T	T	C	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
rs259474449					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	C	T	T	T	T	T	T	T	T	T	T	T	C	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
ss350468143	MGP_WTSI_1_92948796	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:90979941 () rs orientation: forward

Symbol	Name	Function Class
Cpgi568	CpG island 568	291 bp proximal
Lrrfip1	leucine rich repeat (in FLII) interacting protein 1	within coordinates
Rr18304	regulatory region 18304	541 bp distal
Rr29813	regulatory region 29813	within coordinates
Rr396168	regulatory region 396168	542 bp upstream
Tssr8032	transcription start site region 8032	955 bp upstream
Tssr8033	transcription start site region 8033	1203 bp upstream
Tssr8034	transcription start site region 8034	1303 bp upstream
Tssr8035	transcription start site region 8035	1326 bp upstream
Tssr8036	transcription start site region 8036	1332 bp upstream
Tssr8037	transcription start site region 8037	1754 bp upstream
Tssr12924	transcription start site region 12924	597 bp downstream
Tssr12925	transcription start site region 12925	615 bp downstream
Tssr12926	transcription start site region 12926	635 bp downstream
Tssr12927	transcription start site region 12927	668 bp downstream
Tssr12928	transcription start site region 12928	818 bp downstream
Tssr12929	transcription start site region 12929	1627 bp downstream