rs259130227 SNP Detail

Summary

• ID
  rs259130227
• 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
  Chr1:90980501 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTTGCCCGCT TGGCTTTAAG
  TTTAAATCAG GGGTGCTCCT GCCCAGTGGA CGTGGAAGGC GCGTGCTGCG AGTCGGGTCA
  CTGTCCAGCG TGGATACTAG TTCCTCGACG CTCCCTATCG GATCGCGGCT GTCACCTCCG
  CTTGATTCTC GCTCCTGTCC AGCGTGGTCA TGGGCGGTAG CTTTGTGGTC CCCAAAGCCG
  Y
  GCCGGCTCGG AAGACAGTAG TGACGGGCGC AGCTGCGCTC TGGCAGAGGC TCATGCGGTG
  TGGTTCCAGC TAAAGCCACG CGTGTCCTAA CCGAAGGCGC GCCTCCCTAG GCCTGGGCTG
  GTCTCCCGCG CTGACTCAGC TGGGGACGGC CAGGGCGTGG CCAAGGGTGG GGTCCCCAGG
  GTCTTTCCCT CAGTCTTTCC                                            
  
  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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss350468160	MGP_WTSI_1_92949356	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	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs259130227					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	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
ss350468160	MGP_WTSI_1_92949356	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:90980501 () rs orientation: forward

Symbol	Name	Function Class
Cpgi568	CpG island 568	within coordinates
Lrrfip1	leucine rich repeat (in FLII) interacting protein 1	within coordinates
Rr396168	regulatory region 396168	within coordinates
Tssr8032	transcription start site region 8032	395 bp upstream
Tssr8033	transcription start site region 8033	643 bp upstream
Tssr8034	transcription start site region 8034	743 bp upstream
Tssr8035	transcription start site region 8035	766 bp upstream
Tssr8036	transcription start site region 8036	772 bp upstream
Tssr8037	transcription start site region 8037	1194 bp upstream
Tssr12924	transcription start site region 12924	37 bp downstream
Tssr12925	transcription start site region 12925	55 bp downstream
Tssr12926	transcription start site region 12926	75 bp downstream
Tssr12927	transcription start site region 12927	108 bp downstream
Tssr12928	transcription start site region 12928	258 bp downstream
Tssr12929	transcription start site region 12929	1067 bp downstream