rs3148880 SNP Detail

Summary

• ID
  rs3148880
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  105
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr16:93886109 (GRCm39)
• SNP Orientation to the Genome
  reverse

• SNP Reference Flanking Sequence

                                        GCCCG CGATCGGTGG CGGGGCGCAG
  Y
  TGCTCCGCGG TCCACGTGTG ACCGA                                      
  
  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	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	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
ss923369132	MGP_WTSI_16_94085250	EVA_MGPV3	EVA_MGPV3	r	SNP	G	G	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	G	A	G	G	G	A	A	A	G	A	A	G	A	G	A	A	A	A	G	A	G	A	A	A	A	G	A	A	G	A	A	A	G
SNP Consensus Information
SNP					Consensus Type	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	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
rs3148880					SNP	C	C	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	C	T	C	C	C	T	T	T	C	T	T	C	T	C	T	T	T	T	C	T	C	T	T	T	T	C	T	T	C	T	T	T	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
ss923369132	MGP_WTSI_16_94085250	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	r	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr16:93886109 () rs orientation: reverse

Symbol	Name	Function Class
Cpgi8493	CpG island 8493	within coordinates
Cpgi8494	CpG island 8494	1450 bp proximal
Gm31175	predicted gene, 31175	106 bp upstream
Gm49620	predicted gene, 49620	1384 bp upstream
Gm60844	predicted gene, 60844	148 bp upstream
Rr520040	regulatory region 520040	1395 bp distal
Rr520041	regulatory region 520041	894 bp distal
Rr520042	regulatory region 520042	309 bp distal
Rr520043	regulatory region 520043	159 bp distal
Rr520044	regulatory region 520044	within coordinates
Rr520045	regulatory region 520045	1510 bp proximal
Sim2	single-minded family bHLH transcription factor 2	mRNA-UTR
Tssr139539	transcription start site region 139539	316 bp downstream
Tssr139540	transcription start site region 139540	within coordinates