rs229870409 SNP Detail

Summary

• ID
  rs229870409
• 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
  Chr5:30746379 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTGTGTGAG AGGGACAGGA
  GCGGCCGGCC GAGGCTCGGG AGGAGGGGTG TGGCCGGGCT AGGCCCTGGG GCTGGGCATC
  CAGAGTAAGG GCCGGAGAGA GCGCCACTCC TCCGTGTCCC TGACGCTGGG CTTGGGCACC
  CGGGTGTCCA CACCTGCTGG GCGTTGGGAA GGCACGTAGA TGCCGGAAAG CTGCACTCCG
  Y
  GACACACGGG GCCACTCTCT AACTGCGACT GAGTGCTGCT AGGGAGGGGG GTGGGTTGCG
  TGTGTCCGTG TGGGTGTGTG AGTGTGAGTG TGAGTGTGTG TCCACCTCCA TGAGTTTGGG
  CTGCACCAGA CAGGGCCTGT AATTCTCTGA GGGCAGCAGA TCAGGGGCTG GAATCCAGAT
  TCTGTCCTGT TAGCCTTCTT                                            
  
  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
ss364424468	MGP_WTSI_5_30891408	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
rs229870409					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
ss364424468	MGP_WTSI_5_30891408	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:30746379 () rs orientation: forward

Symbol	Name	Function Class
Cpgi15680	CpG island 15680	within coordinates
Del(5D5Mit348-D5Mit389)6Jcs	deletion, Chr 5, John C. Schimenti 6	within coordinates
Gm9899	predicted gene 9899	416 bp upstream
Kcnk3	potassium channel, subfamily K, member 3	within coordinates
Rr124994	regulatory region 124994	within coordinates
Tssr45584	transcription start site region 45584	1629 bp downstream
Tssr45585	transcription start site region 45585	984 bp downstream
Tssr45586	transcription start site region 45586	864 bp downstream
Tssr45587	transcription start site region 45587	850 bp downstream
Tssr45588	transcription start site region 45588	815 bp downstream
Tssr45589	transcription start site region 45589	1021 bp upstream
Tssr50495	transcription start site region 50495	556 bp upstream
Tssr50496	transcription start site region 50496	284 bp upstream
Tssr50497	transcription start site region 50497	260 bp upstream