rs228724879 SNP Detail

Summary

• ID
  rs228724879
• 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
  Chr3:90520301 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACTAGAGGGC AACAGCATCA
  GTGTGGTTCC CAGTCCCCCT CACACTGATG CTAACTTTAA GGACACTGCT CTCGGGCTGG
  CAGAAGGTTC AGCACACAAG CCAGAGTTTC GAGTCACGTG CCAGAAGGGA AAACTAAACA
  CGGAATTAGA GAAAACTTGA TGCCTCTGGC TTGCACTGGT CTCCTTTGGG CCCGTTAGGG
  Y
  CCGCTAAACT CCCTCATTCC GCTCCTAATC CTGGACAGTC CAGGCAACAG GGGCGTGGAA
  AGTTGAGGGG GCTGGGATGT TCGTTTGCCT TGCCTCAGGC GCTGGGTGGG GTCGGGGCGT
  GCCAGCACTC CCTGGGCGGA CCTCACGGAT GCTGGCCACT ATAAGGCCGG CCAGACTGCG
  ACACATTCCA TCCCCTCGAC                                            
  
  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
ss358835885	MGP_WTSI_3_90416916	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	T	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
rs228724879					SNP	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	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
ss358835885	MGP_WTSI_3_90416916	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90520301 () rs orientation: forward

Symbol	Name	Function Class
Gm57853	predicted gene, 57853	190 bp upstream
Rr580416	regulatory region 580416	611 bp distal
Rr580417	regulatory region 580417	within coordinates
Rr580418	regulatory region 580418	185 bp distal
S100a5	S100 calcium binding protein A5	1214 bp downstream
S100a6	S100 calcium binding protein A6 (calcyclin)	mRNA-UTR
Tssr30242	transcription start site region 30242	698 bp downstream
Tssr30243	transcription start site region 30243	129 bp downstream
Tssr30244	transcription start site region 30244	113 bp downstream
Tssr30245	transcription start site region 30245	15 bp downstream
Tssr30246	transcription start site region 30246	152 bp upstream
Tssr30247	transcription start site region 30247	182 bp upstream
Tssr30248	transcription start site region 30248	288 bp upstream
Tssr30249	transcription start site region 30249	525 bp upstream
Tssr30250	transcription start site region 30250	734 bp upstream
Tssr30251	transcription start site region 30251	781 bp upstream
Tssr30252	transcription start site region 30252	1352 bp upstream
Tssr30253	transcription start site region 30253	1376 bp upstream
Tssr34246	transcription start site region 34246	1417 bp downstream