rs225040013 SNP Detail

Summary

• ID
  rs225040013
• 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
  Chr9:56980104 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGCTAACCAC GCTGGGCGAG
  TGCAGTGGCC GCCCTGAGCG TTTGCTTCTG CCGGCAAACT TGGAAGGGTC GTGGGCGCGC
  TCTGGGGAGG CGCGGGCACC GTGGGCCCGC GGTTGTTAAG GACTCTGGGG GCGGGGGCAA
  TGGCTGTATT TGCCGGAGGA GACTTGGGGC GGGAGAGGTT CCAGCCACTA GCCTGGGAGC
  Y
  GCCGGTGTGT CCGAACACGG CATTTTAGCA AGTACTCGGC TGCAGAACCG GCTAGACTGC
  GGTCCGGCGT GGAGCGCTTG CTGAGTGTAG AAAAGCTCTA GGAACTCGGC GGATTCAATT
  CGCGGCCCCA GCTGATCCCC TCGCAAACAT GGAGCTGCCT CCTTCCCCGC CCACCTCACG
  GCCGCGGCGG CTGCTCCCCC                                            
  
  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
ss377681841	MGP_WTSI_9_56920627	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	T	T	T	T	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
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
rs225040013					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	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

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
ss377681841	MGP_WTSI_9_56920627	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:56980104 () rs orientation: forward

Symbol	Name	Function Class
Cpgi21807	CpG island 21807	within coordinates
Cpgi21808	CpG island 21808	1634 bp proximal
Gm10658	predicted gene 10658	854 bp upstream
Gm57026	predicted gene, 57026	922 bp upstream
Rr368762	regulatory region 368762	within coordinates
Rr401391	regulatory region 401391	719 bp downstream
Rr679580	regulatory region 679580	889 bp distal
Rr679581	regulatory region 679581	362 bp distal
Rr679582	regulatory region 679582	234 bp proximal
Rr679583	regulatory region 679583	432 bp proximal
Rr679584	regulatory region 679584	655 bp proximal
Rr679585	regulatory region 679585	735 bp proximal
Sin3a	transcriptional regulator, SIN3A (yeast)	within coordinates
Tssr85282	transcription start site region 85282	772 bp downstream
Tssr85283	transcription start site region 85283	744 bp downstream
Tssr85284	transcription start site region 85284	915 bp upstream
Tssr85285	transcription start site region 85285	1038 bp upstream
Tssr89752	transcription start site region 89752	958 bp upstream
Tssr89753	transcription start site region 89753	915 bp upstream