rs239978641 SNP Detail

Summary

• ID
  rs239978641
• 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
  Chr6:17693659 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAAAACAAAA CGAGTAAAGA
  CTTGTTTGAA TGGCGATCAC TTGGAAAATA GGAAGAAAAA GAAATACGTA TGTTGTCAGT
  TTCTCTGGAA AACCCTTCAC CGTGCTGTTT GGGAAAAACA AAACAAATAG CAGAAGCTAG
  TACAAAGGGA ACCAAAATTT CTCTTCAGGC CTAATGAGCA GGAGTGCATC TCTTCTAGCT
  Y
  GTCTGGATTT CATTGATACC TTTAAGCCCC AGTCCTGGGA GACACAGCTT TAAGACTCCT
  GGAAACCTTG TTTACGTCCT GGAAATCTTG ATTGCAACCG AATTCTGACT CCACTTTAAG
  GTAGACCTAG GAACGCTTTG GGCCTCAGTT TCCCTCCGTC TATCACCCCA GGACCTGGCA
  ACTGTTGCAG GCTCCCCCCC                                            
  
  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
ss367532685	MGP_WTSI_6_17643660	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	T	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
rs239978641					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	T	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
ss367532685	MGP_WTSI_6_17643660	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:17693659 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17178	CpG island 17178	15 bp proximal
Gm55211	predicted gene, 55211	103 bp downstream
Gm55212	predicted gene, 55212	277 bp upstream
Gm55213	predicted gene, 55213	1242 bp upstream
Gm55215	predicted gene, 55215	1694 bp upstream
Rr626833	regulatory region 626833	716 bp distal
Rr626834	regulatory region 626834	within coordinates
Rr626835	regulatory region 626835	884 bp proximal
Rr626836	regulatory region 626836	1055 bp proximal
St7	suppression of tumorigenicity 7	Noncoding-Transcript-Variant
Tssr55085	transcription start site region 55085	42 bp downstream
Tssr55086	transcription start site region 55086	245 bp upstream
Tssr55087	transcription start site region 55087	305 bp upstream
Tssr55088	transcription start site region 55088	345 bp upstream
Tssr55089	transcription start site region 55089	391 bp upstream
Tssr55090	transcription start site region 55090	510 bp upstream
Tssr59909	transcription start site region 59909	1035 bp downstream