rs240288553 SNP Detail

Summary

• ID
  rs240288553
• 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
  Chr18:64477063 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGGTGACAGC TGTTCCACTA
  AGGCCTATCT CGGAGCGCTG CCGCCCCCTC ACGCCCGTCC GGCAAAGGAC AGGGCTGTTT
  ACAAACACTA GTGTTCTGTC TGTTTTGAAA GTTAAGCCTC CCCTTGCAGC GAGCTTTATA
  CAGTGGATGA GGAAGAGTGT GGTACCTGGG CCTCTCAGCC CCAAACTCCT GGAGAGTTGC
  Y
  GGGTGACTCC TGGAGGCAAG CCTTCCAGAC CACAGACCAT GCATCGTGAT ATTCCGGCGG
  GGATCACAGC CAGGGAAAGT GCACTGAGGA CCCGGCTTTG CTAAAACATT TAAATGTGAG
  TCTGTTTTAT AACCTTAGGT GAAAGGGAAC AAGAGCCTTC CCCCCTTTTT TTATCTGACC
  GTTTTATCAG CAACTACAAG                                            
  
  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
ss400955995	MGP_WTSI_18_64503646	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	C	T	T	T	T	C	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	T	T	C	T	T	T	T	T	C	C	C	T	T	T	C	C	C	T	T	T	T	T	T	C	C	T	T	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
rs240288553					SNP	T	T	T	T	C	T	T	T	T	C	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	T	T	C	T	T	T	T	T	C	C	C	T	T	T	C	C	C	T	T	T	T	T	T	C	C	T	T	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
ss400955995	MGP_WTSI_18_64503646	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr18:64477063 () rs orientation: forward

Symbol	Name	Function Class
Cpgi10138	CpG island 10138	588 bp distal
Cpgi10139	CpG island 10139	1121 bp proximal
Cpgi10140	CpG island 10140	1940 bp proximal
Gm58415	predicted gene, 58415	1051 bp downstream
Onecut2	one cut domain, family member 2	within coordinates
Rr539288	regulatory region 539288	within coordinates
Rr539289	regulatory region 539289	1817 bp proximal
Tssr153658	transcription start site region 153658	1613 bp upstream
Tssr153659	transcription start site region 153659	1814 bp downstream