rs253934131 SNP Detail

Summary

• ID
  rs253934131
• 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
  Chr3:80942769 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCACAGATAA GAATGAATGA
  ATGGAACAGG TTTGTAAGGA TTTCACAGGA GAACAGCATC TTTCTTTATT TGGTCCCGGG
  GACTTCCTGG ATGCCAAGCA GGAGTTATAA TGAACAACCT GTCAAGTACT CATTTGAAGG
  AAGAGAGAAG AGGACAGAGA CCTGGCTAGA ACAGGGTTGT TTGGTAGGCC CCAGTGGTGT
  Y
  CAAGAACAAA GGAAAAGATT AACATTTTAT CGTTTGGACT GGTCCCATCT TTTATTTCTG
  TCTCCAGGTC ATGCCCGGTT TCAGGATTAT GTTTACCTTG GTTCTATGGT TGGATTGCAT
  GCCCTGACTG ATTCAACTAA GTACTTGGTG ATACATCTGT CTGACTGCAC ACCAAGGCAT
  TTGCTTGCTC TAATGTTATT                                            
  
  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
ss358623160	MGP_WTSI_3_80839384	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
rs253934131					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
ss358623160	MGP_WTSI_3_80839384	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:80942769 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13283	CpG island 13283	770 bp proximal
Gm16000	predicted gene 16000	within coordinates
Gm42476	predicted gene 42476	1688 bp downstream
Pdgfc	platelet-derived growth factor, C polypeptide	954 bp upstream
Rr375235	regulatory region 375235	within coordinates
Rr578681	regulatory region 578681	573 bp distal
Rr578682	regulatory region 578682	464 bp proximal
Rr578683	regulatory region 578683	965 bp proximal
Rr578684	regulatory region 578684	977 bp proximal
Rr578685	regulatory region 578685	1033 bp proximal
Rr578686	regulatory region 578686	1485 bp proximal
Rr578687	regulatory region 578687	1648 bp proximal
Tssr29617	transcription start site region 29617	898 bp upstream
Tssr29618	transcription start site region 29618	1176 bp upstream
Tssr29619	transcription start site region 29619	1503 bp upstream
Tssr29620	transcription start site region 29620	1603 bp upstream
Tssr29621	transcription start site region 29621	1675 bp upstream
Tssr29622	transcription start site region 29622	1750 bp upstream
Tssr29623	transcription start site region 29623	1917 bp upstream