rs239396676 SNP Detail

Summary

• ID
  rs239396676
• 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
  Chr3:145854060 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGCACTGACT GCTCAGGGGA
  TGCCTTGGAA GAGGGGACAG AATGCTAAAC ATCAGTTATG AGACCCCCAT CTCCTAGAAA
  TGACAGGGAC CTCATACCTA GATAAATGTA TCTTTTACAA CTACCTAGGA AAAGACATAT
  TTTCTCCACC GGTGAGACTG TTTCTAGATT GTCACAGGTG GGAATCTGTT TAGAGAAACA
  Y
  TTGCCAATGA AGAAAGTTAC TGGACACCAG CAACTGTTTA ATGACCTGTC TTGTCAGTGG
  GTAGATATAG TAAGAAGAAA GGTTTTGGAG TGTCAGAGAC CTAAATAGAA AGAGTTCGTC
  TGCTAGTGGC TGTTTATGTG ACTTGGGAGT AGTAACAAAT GTCTGTGAAC ACATACACTC
  TCTCTCTCTC TCTCTCTCTC                                            
  
  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
ss360110169	MGP_WTSI_3_145811269	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	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
rs239396676					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	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
ss360110169	MGP_WTSI_3_145811269	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:145854060 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13913	CpG island 13913	1457 bp proximal
Mcoln2	mucolipin 2	1528 bp upstream
Rr586936	regulatory region 586936	1846 bp distal
Rr586937	regulatory region 586937	1038 bp proximal
Rr586938	regulatory region 586938	1746 bp proximal
Rr586939	regulatory region 586939	1880 bp proximal
Tssr32333	transcription start site region 32333	1517 bp upstream
Tssr32334	transcription start site region 32334	1524 bp upstream
Tssr32335	transcription start site region 32335	1553 bp upstream
Tssr32336	transcription start site region 32336	1923 bp upstream
Tssr32337	transcription start site region 32337	1951 bp upstream
Tssr36030	transcription start site region 36030	1360 bp downstream