rs239827216 SNP Detail

Summary

• ID
  rs239827216
• 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
  Chr5:117258188 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCCACCTGGA CCCGCCCACC
  ACCAGCTCCG CCAATCCCCT GGATCCATCG ACCGCTCGGA CTTCCCAGGC AAGGTCAATC
  GAGCGCCTAT ATACGGCCTG GACCCCGAGA GCGGCGATCA GGGAAGGTCA GTAGAGAACC
  TATCAAAGCA TGGCTGTGGG CGGAGTCGAG GGCGGGGTCG AGTGGGGGCG GGGCGCGCTC
  Y
  GCGCAGTCGG GTGCGATTGG TCACCCCTGG CGGAGCCGCA CCTCGGACAG CAGCAGCGGC
  GGCAGCTAGG GTCCTGCGTG GAGAGTGGGG CGCGACGGGG ACTCGCGGGC GGAGGCTGCG
  CGTGGGGACC CAGCACGCGA AGACCCAGCA CGAGAGCGAC TCTGGGCACG AGTGAGAGGA
  GGCGGCGGCG CCGGGGCCGC                                            
  
  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	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss366399332	MGP_WTSI_5_117570132	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	C	T	T	T	T	C	T	T	T	T	C	T	T	T	T	T	T	C	T	T	T	T	T	T	C	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs239827216					SNP	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	C	T	T	T	T	C	T	T	T	T	T	T	C	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
ss366399332	MGP_WTSI_5_117570132	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:117258188 () rs orientation: forward

Symbol	Name	Function Class
9530046B11Rik	RIKEN cDNA 9530046B11 gene	1400 bp downstream
Cpgi16405	CpG island 16405	within coordinates
Gm57263	predicted gene, 57263	80 bp upstream
Rr378521	regulatory region 378521	856 bp upstream
Rr399292	regulatory region 399292	within coordinates
Rr618571	regulatory region 618571	831 bp distal
Rr618572	regulatory region 618572	91 bp distal
Rr618573	regulatory region 618573	within coordinates
Rr618574	regulatory region 618574	17 bp proximal
Taok3	TAO kinase 3	mRNA-UTR
Tssr48350	transcription start site region 48350	within coordinates
Tssr48351	transcription start site region 48351	62 bp upstream
Tssr52880	transcription start site region 52880	226 bp upstream