rs259089090 SNP Detail

Summary

• ID
  rs259089090
• 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
  Chr5:106607270 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTTGGCTCCA AATCCCGCTT
  TGTCTCCAGT CAGAGCCTGT GCTGGAAGAA ATGCCGGGCC AAGCACTTTC TCCCGAACCG
  GGAAAAACCC CGGGCGAGGC GTTCTCCAGC GGCGCGGGCA GCTGTGGTTC CCTGCGGCAT
  CAGGCTGCTG TGGGGCCGCG GGAACTGGGT GGCTGGTCCG CAGCCTGAGC TCCCGCAGCT
  Y
  CTCCCTCCAA TGCTTCCATC CCCTCCCCAC TGTGGCAGGC CTTGGTTTTG GAAAGGAAAC
  AGTCACCGCC GATCCATTTG GGACCTGGAA CGCGACTGTG ACGCCGCCTT GTCGGAGGGT
  ATCAACTTGC ATTCTTTCTT CAGGACGTCT CCAACCTGTC TCTTGTTGAA TGTCAGAGTA
  ATGGGAAGCG CCAGTGACAA                                            
  
  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
ss366162820	MGP_WTSI_5_106888423	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	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C
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
rs259089090					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C

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
ss366162820	MGP_WTSI_5_106888423	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:106607270 () rs orientation: forward

Symbol	Name	Function Class
Barhl2	BarH like homeobox 2	1238 bp upstream
Cpgi16165	CpG island 16165	within coordinates
Cpgi16166	CpG island 16166	650 bp proximal
Gm33151	predicted gene, 33151	within coordinates
Rr123962	regulatory region 123962	within coordinates
Tssr47756	transcription start site region 47756	703 bp downstream
Tssr52338	transcription start site region 52338	1450 bp upstream
Tssr52339	transcription start site region 52339	986 bp upstream
Tssr52340	transcription start site region 52340	934 bp upstream
Tssr52341	transcription start site region 52341	908 bp upstream