rs580864642 SNP Detail

Summary

• ID
  rs580864642
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr12:49430038 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CGGGA CTGTTTGGGT CTGTGCTCGC
  Y
  CGGGGCAGCT CTCCGCCCGC CCGCC                                      
  
  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	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
ss921313534	MGP_WTSI_12_49383255	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
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	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
rs580864642					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

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
ss921313534	MGP_WTSI_12_49383255	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr12:49430038 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4581	CpG island 4581	within coordinates
Foxg1	forkhead box G1	within coordinates
Gm34304	predicted gene, 34304	1427 bp upstream
Gm43517	predicted gene 43517	1919 bp upstream
Gm56518	predicted gene, 56518	1916 bp downstream
Rr465759	regulatory region 465759	238 bp distal
Rr465760	regulatory region 465760	within coordinates
Rr465761	regulatory region 465761	499 bp proximal
Tssr3838	transcription start site region 3838	1077 bp upstream
Tssr113389	transcription start site region 113389	1260 bp downstream
Tssr113390	transcription start site region 113390	1177 bp downstream
Tssr113391	transcription start site region 113391	588 bp downstream
Tssr113392	transcription start site region 113392	564 bp downstream
Tssr113393	transcription start site region 113393	453 bp downstream
Tssr113394	transcription start site region 113394	150 bp downstream
Tssr113395	transcription start site region 113395	662 bp upstream
Tssr113396	transcription start site region 113396	870 bp upstream
Tssr113397	transcription start site region 113397	1003 bp upstream
Tssr113398	transcription start site region 113398	1032 bp upstream
Tssr113399	transcription start site region 113399	1101 bp upstream
Tssr113400	transcription start site region 113400	1111 bp upstream
Tssr113401	transcription start site region 113401	1255 bp upstream
Tssr113402	transcription start site region 113402	1305 bp upstream
Tssr113403	transcription start site region 113403	1680 bp upstream
Tssr113404	transcription start site region 113404	1706 bp upstream
Tssr113405	transcription start site region 113405	1731 bp upstream
Tssr113406	transcription start site region 113406	1934 bp upstream
Tssr116231	transcription start site region 116231	1425 bp upstream