rs223862547 SNP Detail

Summary

• ID
  rs223862547
• 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
  Chr5:29772554 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CATCTGTTAA GTAGGAATCT
  GTATCTATAG GATTTTGATC TACCTCTTCC CCCGGCCTTT TAGTCATTAC ATATTTATTC
  AAACAATTAC AAAAATATTG GGGCTCTTGT CACTGTTGCC AATACAGCAC TAAACTTGAG
  GTTGGCAAGA TGATTCAGCA GTAAATGTGC TTCCCATCAA GCCTGACGAC TGAACTCACA
  Y
  TCTTGAATAC ACTTGGTAGT GGAGAACAGA CTCTTATAAA TTATCCTCTG ACATTCAAAT
  ATGTGTACAT ACACACACAC ACACACACAC ACACACACAC ACAGAGCCAG TGAGAGAGAG
  AGAGAGAGAG AGACAGAGAG AGAGAGAGAG AGAGAGAGAG AGAGAGAGAG AACTGGTAAA
  ATGATAGAAC AGATGAAAAG                                            
  
  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/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
ss364404771	MGP_WTSI_5_29894096	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	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/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
rs223862547					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	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
ss364404771	MGP_WTSI_5_29894096	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:29772554 () rs orientation: forward

Symbol	Name	Function Class
Cpgi15669	CpG island 15669	1275 bp proximal
Del(5D5Mit348-D5Mit389)6Jcs	deletion, Chr 5, John C. Schimenti 6	within coordinates
Gm71580	predicted gene, 71580	within coordinates
Rr124981	regulatory region 124981	1246 bp proximal
Rr399012	regulatory region 399012	1285 bp upstream
Tssr45535	transcription start site region 45535	1652 bp upstream
Tssr45536	transcription start site region 45536	1786 bp upstream
Tssr45537	transcription start site region 45537	1882 bp upstream
Tssr45538	transcription start site region 45538	1893 bp upstream
Tssr45539	transcription start site region 45539	1907 bp upstream
Tssr45540	transcription start site region 45540	1934 bp upstream
Ube3c	ubiquitin protein ligase E3C	1686 bp upstream