rs220203880 SNP Detail

Summary

• ID
  rs220203880
• Variation Type
  SNP
• Alleles
  G/T

• 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
  Chr3:104127334 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCGCGGAGCC GCCCCAGGTA
  AGGGAACTCG CCGCGCTCGG CGCCGCCGCG GATCTCGGCG CCCAAGTCGC CCGGGGGCCC
  GGCCCAGGAT ACCGCACACT CCTGCACCTT GCTGAGCCAG TGCTTCTTCT TCTTCAACGT
  CTTCGACATC CCGACCTCCG CTGCACCATG GGGAGCCCCC GCGCGGGCGG CCGCGGTGCC
  K
  CTCCGGGCCC CGCGCACAGC CCGGCCAGAG GGGCGCCGCC GTCGACCCCC CGCCTCAGCC
  CGCCGGCCGC GCGCCGCCGC GAGCCGCCCC TCTCGCGGGC CGCTGAGGAG AGCCGGAGGG
  AGCGCGCGCC CCGCGGGCGG CGCCGGCGGG GTCTCCGGGC GGGGTCAGCG CCGACGGCCG
  GGACTCGGCG CCCGCGCGGC                                            
  
  K = G/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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	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
ss359085539	MGP_WTSI_3_104023941	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G
SNP Consensus Information
SNP					Consensus Type	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	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
rs220203880					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G

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
ss359085539	MGP_WTSI_3_104023941	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:104127334 () rs orientation: forward

Symbol	Name	Function Class
2010002M09Rik	RIKEN cDNA 2010002M09 gene	585 bp upstream
Cpgi13643	CpG island 13643	within coordinates
Gm66179	predicted gene, 66179	within coordinates
Magi3	membrane associated guanylate kinase, WW and PDZ domain containing 3	mRNA-UTR
Rr397911	regulatory region 397911	339 bp upstream
Rr582475	regulatory region 582475	349 bp distal
Rr582476	regulatory region 582476	75 bp proximal
Rr582477	regulatory region 582477	596 bp proximal
Tssr31043	transcription start site region 31043	853 bp upstream
Tssr34876	transcription start site region 34876	328 bp downstream
Tssr34877	transcription start site region 34877	342 bp downstream