rs253852831 SNP Detail

Summary

• ID
  rs253852831
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr1:152777544 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCGACGTCGG TGTTAATGCA
  TGTGAGTCTT CTTTAAGTGT GCATCAATCC CTGCTTCCCC TCCCTTACCC CAGACACTCA
  CACACACACA CACACACACA CACACACACA TACACATACA CACGCACGCA CCCCCAGTAC
  CCATGGGTCA CTCTATCTCC TTCATACAAG TTCCTTACAT CGCACCTAAT GAATGCACAC
  R
  ACTCTCAGAA TGGTATCTTC CAACTACAGT TTCTTTCGAG AACATCACCT TGTTCGTAGC
  ACCTCCCTCT TCCCTCGTCT CCCCATCCTT TTTCCCCCTT TCCGGGCTCT CCGACCCCTC
  TAACTCTGGA CAGAAGGCAT TATTTCTCCT CCTTCCAGCC CGCGACTAAA GAACAAGCTC
  GCGTTTCCTG CGGGCTCCCC                                            
  
  R = A/G
  

  
  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
ss351959028	MGP_WTSI_1_154748923	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A
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
rs253852831					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A

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
ss351959028	MGP_WTSI_1_154748923	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:152777544 () rs orientation: forward

Symbol	Name	Function Class
Cpgi860	CpG island 860	within coordinates
D1Mit502	DNA Segment, Chr 1 Massachusetts Institute of Technology 502	32 bp distal
Rr396386	regulatory region 396386	534 bp upstream
Rr396387	regulatory region 396387	1339 bp upstream
Rr420557	regulatory region 420557	within coordinates
Rr420558	regulatory region 420558	819 bp proximal
Rr420559	regulatory region 420559	1774 bp proximal
Smg7	SMG7 nonsense mediated mRNA decay factor	within coordinates
Tssr9437	transcription start site region 9437	1051 bp upstream
Tssr9438	transcription start site region 9438	1104 bp upstream
Tssr14242	transcription start site region 14242	835 bp downstream
Tssr14243	transcription start site region 14243	943 bp downstream
Tssr14244	transcription start site region 14244	964 bp downstream
Tssr14245	transcription start site region 14245	1270 bp downstream
Tssr14246	transcription start site region 14246	1295 bp downstream