rs249445239 SNP Detail

Summary

• ID
  rs249445239
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr1:38706022 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCACCCCTCA TCACACAGCC
  TGTGAACCCT TCCCACTGTG TCCCCTCCTT GCCCCTCATC GCCCCTCTTC CTGCGTCTAT
  GTCTGCCTTC TGCTAACCCA GCTTCCTCCC TTTTCACACC GAGTTTTCTT TATTTGAGCG
  CAGCCTTCTT TATGTATATA TTGGATGGAA TCCAGGGTCT AACTAGAGAC TCCCCTGTCC
  M
  GTTACATAGT GTTACAGTTC TGCCGTCAGC CGTGCGGATT CCCTGGGCAG AAGTAAACCT
  TTCTCCTGTT CCCAAACCAA AACTGAAGAA TTCGCCTGGA TTCGTCCCTT TCCCTAAAAG
  CCTTCAACCT GTAATCAAAA AGTCAGTTCC ATCTCTGAAA CCACTCTGAG TGACTCCTCT
  CCTCTCTTCC TATACCTAGA                                            
  
  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	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	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
ss349302363	MGP_WTSI_1_38723786	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	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	A	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	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
rs249445239					SNP	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	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	A	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
ss349302363	MGP_WTSI_1_38723786	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:38706022 () rs orientation: forward

Symbol	Name	Function Class
Aff3	AF4/FMR2 family, member 3	1986 bp upstream
Rr366875	regulatory region 366875	1786 bp downstream
Rr409725	regulatory region 409725	1997 bp distal
Rr409726	regulatory region 409726	1528 bp distal
Rr409727	regulatory region 409727	830 bp distal
Rr409728	regulatory region 409728	within coordinates
Tssr11347	transcription start site region 11347	1996 bp upstream
Tssr11348	transcription start site region 11348	1941 bp upstream
Tssr11349	transcription start site region 11349	1929 bp upstream
Tssr11350	transcription start site region 11350	1907 bp upstream
Tssr11351	transcription start site region 11351	1342 bp upstream