rs254242039 SNP Detail

Summary

• ID
  rs254242039
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr6:72595483 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACATCTTTAG TGTCTAGGGA
  GATGGTTCAG TGCTTAAGAA CACTGACTAC TCTTCCGGAG GACCCACATT CCATTCCTGG
  AGCCCACAAG CCACCCGACA ACGGTCTATA ATTCCAGTTT CAGGAGACCT GACATCGTCT
  TTTGGCCCAC AGTCACTGCA CACATGAGGT GTAGAGACAT ACATGTCAGT AAAACATACA
  Y
  CCACTTTAAA TGTGCTTGCT CTCTGCTCAT CTGCAGATTC CTGTTTGCAG TCATTTCCTG
  TGTCCTCATC TATGGTAGTG CTGGATGGTT TAAACAAGTT GTCTAAAGTC ATTTATGAAC
  ATTTGCCAGG CTAGGTATCT CATAAACAGT GATTTAACAA GTAGCCTCAA CATCTATGTT
  CATTTTTTTT TCTTTGTCAT                                            
  
  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
ss368753336	MGP_WTSI_6_72568494	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	T	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
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
rs254242039					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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

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
ss368753336	MGP_WTSI_6_72568494	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:72595483 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17549	CpG island 17549	1305 bp distal
Gm67593	predicted gene, 67593	within coordinates
Rr399708	regulatory region 399708	1557 bp downstream
Rr632244	regulatory region 632244	1673 bp distal
Rr632245	regulatory region 632245	1743 bp distal
Rr632246	regulatory region 632246	1511 bp distal
Rr632247	regulatory region 632247	1010 bp distal
Rr632248	regulatory region 632248	903 bp proximal
Tgoln1	trans-golgi network protein	1500 bp upstream
Tssr57152	transcription start site region 57152	1582 bp downstream
Tssr61478	transcription start site region 61478	1744 bp upstream