rs239541338 SNP Detail

Summary

• ID
  rs239541338
• Variation Type
  SNP
• Alleles
  C/G

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:118732724 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        AAGCC CCCTCCCCCA TCGTGGTCCC
  S
  GAGGCTAGGG GCCGCGGCTG GGGGC                                      
  
  S = C/G
  

  
  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/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	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
ss639720983	FVB_NJ_2_118727979	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	G	C	C	C	C	C	G	G	G	C	C	C	C	G	C	C	C	G	G	G	C	C	C	C	C	C	C	C	G	C	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/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	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
rs239541338					SNP	C	C	C	G	C	C	C	C	C	G	G	G	C	C	C	C	G	C	C	C	G	G	G	C	C	C	C	C	C	C	C	G	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
ss639720983	FVB_NJ_2_118727979	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:118732724 () rs orientation: forward

Symbol	Name	Function Class
Bahd1	bromo adjacent homology domain containing 1	Intron
Cpgi12098	CpG island 12098	within coordinates
Gm32957	predicted gene, 32957	1063 bp upstream
Gm75754	predicted gene, 75754	1444 bp upstream
Rr397220	regulatory region 397220	739 bp downstream
Rr563366	regulatory region 563366	1746 bp distal
Rr563367	regulatory region 563367	780 bp distal
Rr563368	regulatory region 563368	1198 bp distal
Rr563369	regulatory region 563369	930 bp distal
Rr563370	regulatory region 563370	within coordinates
Rr563371	regulatory region 563371	600 bp distal
Rr563372	regulatory region 563372	142 bp distal
Rr563373	regulatory region 563373	289 bp proximal
Rr563374	regulatory region 563374	782 bp proximal
Tssr19587	transcription start site region 19587	1846 bp downstream
Tssr19588	transcription start site region 19588	840 bp downstream
Tssr19589	transcription start site region 19589	755 bp downstream
Tssr19590	transcription start site region 19590	626 bp downstream
Tssr19591	transcription start site region 19591	580 bp downstream