rs239117403 SNP Detail

Summary

• ID
  rs239117403
• 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
  Chr3:136374361 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GATTACAGAG TCCTCTTGTA
  GATAATTTCA TGTTCCCTGA AAATTCCACT GGGCTATATA GATCTTATTG AAAGCAAGGA
  CCCTAGAGGT GGCAAATTTA GCAGCAGAAA TCTGGCCACG AGGGCAGCCT CCCTTTGCGG
  ATGGGATGTG ACCATCCACT CCATCTCTCC TTTTGACTGG CAGGCTAGCC TTCTCACATC
  Y
  TCTGTCCTAA AATCCTTGAG GCTACCTAGT TGTCATGCCC CAGAGCCACC AATTTGCTAT
  TAAATTTGTA TTTTTTTGGA CTTGAGTTTC ATCTAATCCC TGTGGCCAGA TCAGTTCTCC
  TGGCTCCATC TCCTAGCTTC CTAAACTCCC CCCCCCGCCC CCTCCCAAGA CAGTCCTGGC
  TGTCCTGGGA CTCAGTCTGT                                            
  
  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
ss359865472	MGP_WTSI_3_136331564	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	T	C	C	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	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
rs239117403					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	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
ss359865472	MGP_WTSI_3_136331564	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:136374361 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13862	CpG island 13862	711 bp proximal
Gm56786	predicted gene, 56786	71 bp downstream
Ppp3ca	protein phosphatase 3, catalytic subunit, alpha isoform	1524 bp upstream
Rr398056	regulatory region 398056	1249 bp upstream
Rr585833	regulatory region 585833	72 bp distal
Rr585834	regulatory region 585834	306 bp proximal
Rr585835	regulatory region 585835	693 bp proximal
Rr585836	regulatory region 585836	1313 bp proximal
Rr585837	regulatory region 585837	1680 bp proximal
Tssr31863	transcription start site region 31863	1476 bp upstream
Tssr31864	transcription start site region 31864	1588 bp upstream
Tssr31865	transcription start site region 31865	1618 bp upstream
Tssr31866	transcription start site region 31866	1656 bp upstream
Tssr31867	transcription start site region 31867	1680 bp upstream
Tssr31868	transcription start site region 31868	1820 bp upstream
Tssr31869	transcription start site region 31869	1830 bp upstream
Tssr31870	transcription start site region 31870	1856 bp upstream
Tssr31871	transcription start site region 31871	1920 bp upstream
Tssr31872	transcription start site region 31872	1969 bp upstream
Tssr31873	transcription start site region 31873	1986 bp upstream
Tssr35849	transcription start site region 35849	1292 bp downstream