rs108333985 SNP Detail

Summary

• ID
  rs108333985
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  132
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr17:85923414 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTGCTAGGG GTACTCAAGA
  AGGGAGTGAA AGGGGACCTT GAGTTCCAAC TGTCCAGGAG AAAGAACAAT GGAGGCGAGA
  GGGCAGTGAG AGATGTCAAC TCTTCCTGAG GAGTGAAGTG CAGTTTCTAA TGGTTTCTTA
  TATTAACTAG TTAGCTGTGT TCCTTGGCCC AAGAAGAGGA GAGAAGGAGT AGATGCTTGT
  Y
  CTAGTGGGTG GCTGTCTCCA CTCCCTTTTC CTAGGATTTT CCCCCTCTCG TCCAGGTTTT
  TTTGGGGTCC CAGTCTTGCC TAAGGAGCGT GGTCTTTCCT GGGCTAACTT CTTCAGACCT
  CTCCATGGCT ATAAACGCAA TGGAAGAGAG ACCAGGGATG GGATTGTGTG AAACTGGAAG
  TCATTCTCCG AGGGGTGTGA                                            
  
  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
ss399316302	MGP_WTSI_17_86015326	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
rs108333985					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
ss399316302	MGP_WTSI_17_86015326	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:85923414 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9588	CpG island 9588	1907 bp distal
Cpgi9589	CpG island 9589	527 bp distal
Cpgi9590	CpG island 9590	593 bp proximal
Cpgi9591	CpG island 9591	1102 bp proximal
Cpgi9592	CpG island 9592	1748 bp proximal
Gm55783	predicted gene, 55783	1251 bp downstream
Gm55784	predicted gene, 55784	704 bp downstream
Gm55785	predicted gene, 55785	716 bp upstream
Six3	sine oculis-related homeobox 3	within coordinates
Six3os1	SIX homeobox 3, opposite strand 1	within coordinates
Tssr149707	transcription start site region 149707	1174 bp upstream
Tssr149708	transcription start site region 149708	976 bp upstream
Tssr149709	transcription start site region 149709	928 bp upstream
Tssr149710	transcription start site region 149710	834 bp upstream
Tssr149711	transcription start site region 149711	810 bp upstream
Tssr149712	transcription start site region 149712	524 bp upstream