rs258113949 SNP Detail

Summary

• ID
  rs258113949
• Variation Type
  SNP
• Alleles
  A/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
  Chr3:9070317 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AACAACAATA TTAACTAACC
  AGTACCCCCG GAGCTCGTAT TTCTAGCTGC ATATGTAGCA GAAGACGGCC TAGTAGGTCA
  TCATTGGGAA GAGAGGCCCC TTGGTCTTGC AAACCTCATA TGCCCCAGTA CAGGGGAACA
  CCAGGGCCAA GAAGTGGGAG TGGGGTGGGG GGGGGGGGAA TAGGGCACTT TCGGGATAGC
  W
  TTTGAAATGT AAATGAAGAA AATACCTAAT AAAAAATTGG AAAAAATTAT ACTCAAAAAG
  AAAAAAAGAA GAAGAAAGTA AATTTGGCTT AGAAGGAAAC TCTGTAATAT AAAAAAGAAC
  TTGAATTTCG TATGTCTGGG GGGATGCAAC TAAGTAGTAA ATGTGTAGGC CTAGCATGTG
  CAAAGATGGT ACATCTGAGA                                            
  
  W = A/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	129S1/SvImJ	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss356913816	MGP_WTSI_3_9005257	EVA_MGPV3	EVA_MGPV3	f	SNP	A	T	A	A	T	T	A	A	T	T	A	A	A	A	T	T	A	T	T	A	T	A	A	A	A	T	A	A	A	A	A	A	A	A	A	A	T	T	A	A	A	A	A	A	A	A	A	A	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs258113949					SNP	A	T	A	A	T	T	A	A	T	T	A	A	A	A	T	T	A	T	T	A	T	A	A	A	A	T	A	A	A	A	A	A	A	A	A	A	T	T	A	A	A	A	A	A	A	A	A	A	T

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
ss356913816	MGP_WTSI_3_9005257	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:9070317 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12969	CpG island 12969	386 bp distal
Rr374475	regulatory region 374475	531 bp downstream
Rr573365	regulatory region 573365	1911 bp distal
Rr573366	regulatory region 573366	829 bp distal
Rr573367	regulatory region 573367	44 bp distal
Rr573368	regulatory region 573368	302 bp proximal
Rr573369	regulatory region 573369	1545 bp proximal
Tpd52	tumor protein D52	493 bp upstream
Tssr32570	transcription start site region 32570	1401 bp upstream
Tssr32571	transcription start site region 32571	829 bp upstream
Tssr32572	transcription start site region 32572	790 bp upstream
Tssr32573	transcription start site region 32573	742 bp upstream
Tssr32574	transcription start site region 32574	622 bp upstream
Tssr32575	transcription start site region 32575	507 bp upstream
Tssr32576	transcription start site region 32576	486 bp upstream