rs247413411 SNP Detail

Summary

• ID
  rs247413411
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr3:5640549 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGAAAGAAGC TACTCCAAAT
  CCATTCTGTT CAGGTTTAAC TAAAGGCCAC ACATTCCTGG AGGGTGTTTT GACTACAAAC
  TGGTAAGGGT CGGGATGGGG GTCCTTAGTC ATACACCAAT TATCTAAAAT AATCAAGATG
  AAAAATGTGG CAAAGGGTCC CACAGAATAT TTGAAACCGA TAGTCTGGGA AAGTTTCAAT
  Y
  CGTGAAAAGT TCTTTTGCTA AGTGTTGCTG TGTGAAAAAT GGCACGTGAA TAAACTACTG
  AACCAACAAA GACTTTTAAG GACTCCCCAC AAAGAAGAGA AATGATTATA ACATTCCTTA
  TAGCAAACCA ATGGATTGCA ATGTAAGTCA GAAACTAACT TGTAAGAAAA CCTTCCATAA
  CTCTTGCCAC GAAGACCAAG                                            
  
  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	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
ss356836795	MGP_WTSI_3_5575489	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	T	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
rs247413411					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	T	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
ss356836795	MGP_WTSI_3_5575489	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:5640549 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12950	CpG island 12950	256 bp proximal
Gm6146	predicted gene 6146	713 bp upstream
Pex2	peroxisomal biogenesis factor 2	Intron
Rr573198	regulatory region 573198	within coordinates
Rr573199	regulatory region 573199	629 bp proximal
Rr573200	regulatory region 573200	884 bp proximal
Rr573201	regulatory region 573201	1013 bp proximal
Tssr28281	transcription start site region 28281	390 bp upstream
Tssr32526	transcription start site region 32526	605 bp downstream
Tssr32527	transcription start site region 32527	622 bp downstream
Tssr32528	transcription start site region 32528	683 bp downstream
Tssr32529	transcription start site region 32529	730 bp downstream
Tssr32530	transcription start site region 32530	744 bp downstream