rs223139561 SNP Detail

Summary

• ID
  rs223139561
• Variation Type
  SNP
• Alleles
  A/C

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

Genome Location and Flanking Sequence

• Location
  Chr6:57801069 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGAGGAGGAG GAGGAGGAGG
  AAGGAGAAGG AGAAGGAGAA GGAGAAGGAG AAGGAGAAGG AGAAGGAGAA GGAGAAGGAG
  AAGGAGAAGG AGAAGGAGAA GGAGAAGGAG AAGGAGAAGA AGAAGAAGAA GAAGAAGAAG
  AAGAAGAAGA AGAAGAAGAA GAAGAAGAAG AAGAAGAAGA AAGGAAAGAG AGAGAGTGAG
  M
  GAGAGAAACA GAAAGAAAAG AAAAAAGAGG TATTTCAAAG AAAAACGAGC AATCTTTGCT
  CTGATCCGAA CTTAGAGCTT GGAGAAACTG TTCCCTTAAC TCTCCTGGAA AGAAAGACTT
  TTCCTCCAGC ATAAATGAGA ATCTTTCCAA GCACCGCTGA CTCCCCAACC AAGGAAGTTT
  ACAGTTTTCT GAGGCAGGAC                                            
  
  M = A/C
  

  
  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	129S1/SvImJ	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	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss368438971	MGP_WTSI_6_57774078	EVA_MGPV3	EVA_MGPV3	f	SNP	A	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	A	C	C	A	C	C	C	C	A	A	A	C	A	C	A	C	C	A	A	A	C	A	C	C	C	C	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	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	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs223139561					SNP	A	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	A	C	C	A	C	C	C	C	A	A	A	C	A	C	A	C	C	A	A	A	C	A	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
ss368438971	MGP_WTSI_6_57774078	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:57801069 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi17487	CpG island 17487			344 bp proximal
Rr399671	regulatory region 399671			808 bp downstream
Rr631165	regulatory region 631165			724 bp distal
Rr631166	regulatory region 631166			328 bp distal
Rr631167	regulatory region 631167			97 bp proximal
Rr631168	regulatory region 631168			385 bp proximal
Rr631169	regulatory region 631169			1042 bp proximal
Tssr56734	transcription start site region 56734			361 bp downstream
Tssr56735	transcription start site region 56735			401 bp upstream
Tssr56736	transcription start site region 56736			453 bp upstream
Tssr56737	transcription start site region 56737			561 bp upstream
Tssr61164	transcription start site region 61164			549 bp downstream
Tssr61165	transcription start site region 61165			971 bp downstream
Tssr61166	transcription start site region 61166			1060 bp downstream
Tssr61167	transcription start site region 61167			1198 bp downstream
Vopp1	vesicular, overexpressed in cancer, prosurvival protein 1			Intron
				Noncoding-Transcript-Variant