rs239259204 SNP Detail

Summary

• ID
  rs239259204
• Variation Type
  SNP
• Alleles
  A/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
  Chr12:112978479 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCCAGCCCC AGCTGCGTGC
  CCAGGTACGC CCCCGTGCTG CGCTTTGTCC GCGCGCACCT GCCTGCGGGC CGGGACCCCG
  CGCCCCCGAG CGCGCGCGGG TGACTGCAAG GCGAGGGCCG GGGCGGGGCA GCGGGCCTGT
  GGCTCGCCCG GCCGGTGCTC TGCCCGCACC TTGACACCTG CGTCCCGGGC CGGGCTGCGC
  W
  GCGGACCTCA GGCGGTGGAG CTCTCGGCTA GTGCCACAGC TCTCCTCCGG CGTGCAGCGG
  CACTGTCACA CCCCAGAGGC CTGGGCCTGA GGCTCCCGGG ACACGCCGCT GTCTCCTCTC
  CATCTACCCT GCGGGTGAGG TCTGCGCTCT CTTCACCTGT CGGCCTTGTG TCCGGCGTTG
  TGACGAGAGC TCCCGAGACC                                            
  
  W = A/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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	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
ss387397474	MGP_WTSI_12_114253070	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	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
rs239259204					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	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
ss387397474	MGP_WTSI_12_114253070	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr12:112978479 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5198	CpG island 5198	within coordinates
Gm61130	predicted gene, 61130	551 bp upstream
Pacs2	phosphofurin acidic cluster sorting protein 2	within coordinates
Tssr115451	transcription start site region 115451	389 bp downstream
Tssr115452	transcription start site region 115452	346 bp downstream
Tssr115453	transcription start site region 115453	320 bp downstream
Tssr115454	transcription start site region 115454	302 bp downstream
Tssr115455	transcription start site region 115455	291 bp downstream
Tssr117933	transcription start site region 117933	596 bp upstream