rs259542106 SNP Detail

Summary

• ID
  rs259542106
• Variation Type
  SNP
• Alleles
  C/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
  Chr16:17437022 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTGTTGGTTC TTAACCAGGA
  AGAATTCTTT CAAAGAAGTT TCAATTATTG ATTGCTTGAT TGTTTGTCTT TTCAAGACAG
  GGTTTCTCTG TGTAATCCTG GCTATCTTGA ACCTCTGGCT TTGAACTCAA GAGATCTGCC
  TGCCTCTGCC TCCAGAACGC ATGGATTAAA AGCGTGTGTC ACCAGGGCAA CAACCTCTTT
  S
  TAGAAACTTT TCATTTCATG TAGTCCCATT TTAATTCTCC AGGCTATTTC TGTGTCAGTG
  AAGTACAGTG TTGAAAAGTC TTGCCTATAT CTATTTTTCT AGACGCGTAT TCCTGTTGTC
  TTCTGTATTT CAGACCTTAC TTTGATCCTC TCGGATTCCC GCCAAACTAA GGGGGCGTGG
  CACCCGGCGC AGCTTGATGA                                            
  
  S = C/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
ss395522383	MGP_WTSI_16_17619251	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	G	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
rs259542106					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	G	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
ss395522383	MGP_WTSI_16_17619251	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr16:17437022 () rs orientation: forward

Symbol	Name	Function Class
Cpgi8019	CpG island 8019	117 bp proximal
Gm59742	predicted gene, 59742	within coordinates
Rr370058	regulatory region 370058	73 bp upstream
Rr391410	regulatory region 391410	529 bp downstream
Rr512417	regulatory region 512417	853 bp distal
Rr512418	regulatory region 512418	466 bp distal
Rr512419	regulatory region 512419	within coordinates
Smpd4	sphingomyelin phosphodiesterase 4	196 bp upstream
Tssr137314	transcription start site region 137314	183 bp upstream
Tssr137315	transcription start site region 137315	285 bp upstream
Tssr137316	transcription start site region 137316	312 bp upstream
Tssr137317	transcription start site region 137317	331 bp upstream
Tssr137318	transcription start site region 137318	345 bp upstream
Tssr137319	transcription start site region 137319	372 bp upstream