rs246039859 SNP Detail

Summary

• ID
  rs246039859
• 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
  Chr3:68912964 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATCCCGGAAA GTGACCCAAC
  CCAAGCAGAC GCTGCCAGAG TCCAGTTCAG CAGTGTGTGG CGGGTGACTC CGGCTTCGGC
  CATCCTCTCC GCTGGGGCGA TGAGGAAAAG AGACCTGGAC TTCTCCGAGG GCCGTCCGGG
  CGTCAGGACC TAAATGGCGG GGAGAAGGGA GGGGGTTGAC AAGTCGCCCG GGCAGGCAGG
  M
  GCTGCTGCTC TGGAGAGTAG CCACGCAGCC CCGAAGCTGG ACGAACTTGT CTCTCTCTCT
  CTCTCCCACT CTGTACCTCT CTCCCTCCCT CCCCGATTCC GAGCACATTC ACTCCCCAGC
  CCCGACGGGA GGAGACTTGT CAGCAGACGT CCTTCTCTTA TGAGATGGTT CCACAGGGGC
  GGGGGTGGCC TGAGCGAATT                                            
  
  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
ss358313308	MGP_WTSI_3_68809553	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	A	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	A	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	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
rs246039859					SNP	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	C	C	C	C	C	C	C	C	C	C	C	C	C	A	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
ss358313308	MGP_WTSI_3_68809553	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:68912964 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13255	CpG island 13255	within coordinates
Ift80	intraflagellar transport 80	1072 bp upstream
Rr397713	regulatory region 397713	842 bp downstream
Rr578108	regulatory region 578108	1099 bp distal
Rr578109	regulatory region 578109	630 bp distal
Rr578110	regulatory region 578110	within coordinates
Smc4	structural maintenance of chromosomes 4	within coordinates
Tssr901	transcription start site region 901	1218 bp upstream
Tssr29506	transcription start site region 29506	900 bp downstream
Tssr29507	transcription start site region 29507	610 bp downstream
Tssr29508	transcription start site region 29508	489 bp downstream
Tssr29509	transcription start site region 29509	318 bp downstream
Tssr29510	transcription start site region 29510	277 bp downstream
Tssr29511	transcription start site region 29511	146 bp downstream
Tssr29512	transcription start site region 29512	102 bp upstream
Tssr29513	transcription start site region 29513	296 bp upstream
Tssr29514	transcription start site region 29514	401 bp upstream
Tssr33516	transcription start site region 33516	1253 bp upstream
Tssr33517	transcription start site region 33517	1164 bp upstream
Tssr33518	transcription start site region 33518	1132 bp upstream
Tssr33519	transcription start site region 33519	1086 bp upstream
Tssr33520	transcription start site region 33520	1067 bp upstream
Tssr33521	transcription start site region 33521	1046 bp upstream
Tssr33522	transcription start site region 33522	792 bp downstream