rs239389608 SNP Detail

Summary

• ID
  rs239389608
• 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
  Chr3:106945100 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTCTGGTGGG CAGTAGTAAC
  CATGACAACT GTTGGTTATG GTGATATGCA CCCAGTGACC ATAGGAGGCA AGATTGTGGG
  CTCTCTTTGT GCCATCGCAG GTGTCTTGAC CATTGCATTG CCAGTTCCTG TGATTGTTTC
  CAACTTCAAC TACTTCTACC ACCGGGAGAC AGAAGGGGAA GAGCAAGCCC AGTACATGCA
  Y
  GTGGGCAGTT GCCAGCACCT CTCCTCTTCA GCCGAGGAGC TCCGAAAAGC CCGGAGTAAC
  TCCACTCTGA GTAAGTCGGA GTATATGGTG ATCGAAGAGG GGGGTATGAA CCACAGCGCC
  TTCCCGCAGA CCCCCTTCAA AACGGGCAAC TCCACAGCCA CTTGCACCAC GAACAATAAC
  CCCAACTCCT GTGTCAACAT                                            
  
  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
ss359136881	MGP_WTSI_3_106840702	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	T	C	C	C	C	C	C	T	C	C	T	C	C	C	T	T	T	C	T	C	C	C	T	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
rs239389608					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	T	C	C	T	C	C	C	T	T	T	C	T	C	C	C	T	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
ss359136881	MGP_WTSI_3_106840702	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:106945100 () rs orientation: forward

Symbol	Name	Function Class
AI504432	expressed sequence AI504432	1720 bp upstream
Cpgi13669	CpG island 13669	328 bp distal
Gm56792	predicted gene, 56792	within coordinates
Kcna3	potassium voltage-gated channel, shaker-related subfamily, member 3	Coding-Synonymous
Rr397927	regulatory region 397927	419 bp upstream
Rr397928	regulatory region 397928	1050 bp upstream
Rr582885	regulatory region 582885	1605 bp distal
Rr582886	regulatory region 582886	1093 bp distal
Rr582887	regulatory region 582887	187 bp distal
Rr582888	regulatory region 582888	514 bp proximal
Rr582889	regulatory region 582889	1183 bp proximal
Tssr31148	transcription start site region 31148	1603 bp downstream
Tssr31149	transcription start site region 31149	1143 bp upstream
Tssr35008	transcription start site region 35008	259 bp downstream
Tssr35009	transcription start site region 35009	522 bp downstream