rs261677290 SNP Detail

Summary

• ID
  rs261677290
• 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
  Chr3:5642024 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTTAATGCTA CCAACCCCGC
  CTGCATCCCC AGGCTCGTGG AGGTAGTGAT ACAAAAATAC AATTGTCTCC AATGCCCCAA
  AACTTTTCAT TGTATTTTGT TTCAGAAATT ACCCAGAGCA TCAGAGTTCT GTGCATGACA
  CATGGACAGC ATAAAGGAGG CGGTAATAAG AACCTCAGAA TCATGCACTC AGTACAATTC
  Y
  GATTCTTTGT TTTTTGTTTT TTAAATAATG TGTGTTTTTA AAAAAACAAA ACAAACAAAA
  AAACCTTAGT ATCTGGAGTA TATTAAAGGA GAACTTGGGA GCAAAATTGG GTGGAAGACA
  AAGAAAGCAA ACAAATCCCT TTTTAACAAG TAACCTGACA GTGTAGAAAA CACTGTAGGA
  GGAGCTCCAG TTTGCTACAG                                            
  
  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
ss356836850	MGP_WTSI_3_5576964	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T
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
rs261677290					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T

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
ss356836850	MGP_WTSI_3_5576964	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:5642024 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12950	CpG island 12950	200 bp distal
Gm6146	predicted gene 6146	within coordinates
Pex2	peroxisomal biogenesis factor 2	mRNA-UTR
Rr573198	regulatory region 573198	847 bp distal
Rr573199	regulatory region 573199	235 bp distal
Rr573200	regulatory region 573200	570 bp distal
Rr573201	regulatory region 573201	441 bp distal
Tssr28281	transcription start site region 28281	1051 bp downstream
Tssr32526	transcription start site region 32526	854 bp upstream
Tssr32527	transcription start site region 32527	802 bp upstream
Tssr32528	transcription start site region 32528	781 bp upstream
Tssr32529	transcription start site region 32529	733 bp upstream
Tssr32530	transcription start site region 32530	720 bp upstream