rs220527963 SNP Detail

Summary

• ID
  rs220527963
• 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
  Chr17:85920065 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGGGCCAGAG CTAGAGTCAC
  TGCCCCCCCA CCCCCCATCG TGGGGCAAAG CCACTTTTCA GGGTCCCAAG AGGGACCTAA
  GGTCCTGGTA GCAGAGCAGA GTATTGAAAA CAGTTATTCC TAGTTTCTCA ACAACCCTAA
  GCGATGTATT CCTCCGCCGC CTTCTCTCCT CTGGCCTGGG CAGCCTGTAT TTTCACCTGC
  Y
  CGCGAGAGAG CAGGCTTTGG GGCGTGCACA GAGAAGGGTG TGCGCGAACA TGTTCGCGTG
  CTGTTGGAAG TGGCTTCGGC GAAGCTTCTA GATGTGAGGA TTTTTTTTTT CCTTTCCTCG
  ATTGAAGATG ACTTGCGACT AACTTCAGGT AGTGCATTCT TAAGGGACGA GTATTAGTCC
  GACTGTCGTC TATGAGTTTT                                            
  
  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
ss399316264	MGP_WTSI_17_86011977	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	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	T	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
rs220527963					SNP	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	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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
ss399316264	MGP_WTSI_17_86011977	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:85920065 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9587	CpG island 9587	19 bp proximal
Cpgi9588	CpG island 9588	967 bp proximal
Gm55781	predicted gene, 55781	874 bp downstream
Gm55782	predicted gene, 55782	745 bp upstream
Rr340290	regulatory region 340290	1664 bp distal
Rr340291	regulatory region 340291	within coordinates
Six3	sine oculis-related homeobox 3	971 bp upstream
Six3os1	SIX homeobox 3, opposite strand 1	within coordinates
Tssr146084	transcription start site region 146084	589 bp upstream
Tssr146085	transcription start site region 146085	795 bp upstream
Tssr149705	transcription start site region 149705	260 bp upstream
Tssr149706	transcription start site region 149706	417 bp downstream