rs260195404 SNP Detail

Summary

• ID
  rs260195404
• 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
  Chr9:56978652 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAATCCAAGA TGCACCTTTG
  TTGCCAGTAA ACTCACCAGT CCAACAGCCT CTGTGCCTGC TATGTGTGTG TGGCACTCTT
  TGTTCAGACT GCTAGCTAAA CAGAATTACT CATGTTGAAA TGACTGTGGA TCTACTTAGA
  GAGAGAGAGA GAGAGAGAGA GAGAGAGAGA GAGAGAGAGA GATAGGGTTG GGAAAGACTT
  Y
  GCCTTACTTC CTGCAGCAAG CATCTGAGTG TTTGGAGGAT ATCGTGAATA TTCCAGCCAG
  TTTAAAATTG CACTAGATAG CAGACAGAGT GAAATACCTG ATTCACACCC CATAGCGGCT
  CAGACAAGTG CCAGTTTTCC AGGTTTTCGG AATTCATGGC TGAAAGGCAC CTTACAATGT
  AGACTGGACA CACGTTTAAC                                            
  
  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
ss377681831	MGP_WTSI_9_56919175	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
rs260195404					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
ss377681831	MGP_WTSI_9_56919175	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:56978652 () rs orientation: forward

Symbol	Name	Function Class
Cpgi21807	CpG island 21807	560 bp proximal
Gm10658	predicted gene 10658	within coordinates
Rr368762	regulatory region 368762	774 bp upstream
Rr401391	regulatory region 401391	432 bp upstream
Rr679579	regulatory region 679579	782 bp distal
Rr679580	regulatory region 679580	within coordinates
Rr679581	regulatory region 679581	564 bp proximal
Rr679582	regulatory region 679582	1686 bp proximal
Rr679583	regulatory region 679583	1884 bp proximal
Sin3a	transcriptional regulator, SIN3A (yeast)	672 bp upstream
Tssr85282	transcription start site region 85282	656 bp upstream
Tssr85283	transcription start site region 85283	697 bp upstream
Tssr89752	transcription start site region 89752	482 bp downstream
Tssr89753	transcription start site region 89753	511 bp downstream