rs239053239 SNP Detail

Summary

• ID
  rs239053239
• 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
  Chr4:116679603 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GATATAAAGA AGTTGATACC
  TTCCTAAAGA TATCAGCCAG GGGAACTCAA GATTCGTGAG ATCACTAGAA TGAGGAAACT
  GGAAGTCTTG TGAGACTTCA GCTGGAAGGT CCTTGAAGCA AGGTTATAGG ACATTGAAAG
  GGCAAAATGA GGGAGCAAAC CTGAGAGAAG AAGCAAGCCA GACTCGGAAC AATTGTGTTG
  R
  GAAGACATTT GGGAAGGACA ACATGCCCAG AAATTTGTCA GGAAGTGACA GAAGGCTGCC
  ATAGGGGGAC AAGACTTAGA CAAGGAGGCT TGTCGAGGTC AGGGCCTCTT CCTCTGACCA
  GTGATCAGAA GAACATGGAT TCCAGAGCTA AGCAGCCCTG GGTTAGAAAT ATCTCTGGGC
  TGGGCGTGGT GGGTCATGCC                                            
  
  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	ZALENDE/EiJ
ss362957290	MGP_WTSI_4_116495011	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	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G
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
rs239053239					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	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G

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
ss362957290	MGP_WTSI_4_116495011	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:116679603 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14642	CpG island 14642	751 bp distal
Gm12996	predicted gene 12996	1434 bp upstream
Hpdl	4-hydroxyphenylpyruvate dioxygenase-like	898 bp upstream
Rr597993	regulatory region 597993	543 bp distal
Rr597994	regulatory region 597994	1835 bp proximal
Tssr42929	transcription start site region 42929	1519 bp upstream
Tssr42930	transcription start site region 42930	1500 bp upstream
Tssr42931	transcription start site region 42931	919 bp upstream
Tssr42932	transcription start site region 42932	907 bp upstream
Tssr42933	transcription start site region 42933	885 bp upstream