rs260997772 SNP Detail

Summary

• ID
  rs260997772
• 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
  Chr3:90172717 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCTCCTGGGG GGGTGGGGGG
  CGGGTATGAG TGGAGAAAGC AGGGCGCGTT GAAGAGCTTG GGGTCCCCAG CAACGTGGGA
  GCCGGGAGGA CCGCGCGGCT GGAACTAGCG GTGTGGTGTG GCAGCAGTCC CCGCGTGGCG
  CAGCGCGCGG GGACGCTGGG ACCGCCCAGA TCTTCTTCCA CCGTGCCCGG CGCCCTCGGC
  Y
  GCTGCTTCTT CCTTCAGCCC GGGCGCGAGC GGCTCCTAAG TCGAGTGCGC CATGTCCGGG
  GCTGGATAGC AGCCCAGCCG CCCGCCGGCC CGCCAGCCCG CCCTCAGAGC CACCCGCCAG
  CGGGCCGGCT GGGGAGTCCC AGGGCAGGCA GGTAGGGGCC GGACCGGGCG GGGCGGCGGG
  CGGGTTAGGG CGGGCGGAGG                                            
  
  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	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	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
ss358829466	MGP_WTSI_3_90069332	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	C	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	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	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
rs260997772					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	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
ss358829466	MGP_WTSI_3_90069332	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90172717 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13456	CpG island 13456	within coordinates
Crtc2	CREB regulated transcription coactivator 2	1285 bp downstream
Dennd4b	DENN domain containing 4B	within coordinates
Gm65083	predicted gene, 65083	573 bp downstream
Rr397807	regulatory region 397807	333 bp downstream
Rr580320	regulatory region 580320	215 bp distal
Rr580321	regulatory region 580321	291 bp distal
Rr580322	regulatory region 580322	within coordinates
Rr580323	regulatory region 580323	within coordinates
Rr580324	regulatory region 580324	976 bp proximal
Rr580325	regulatory region 580325	1115 bp proximal
Tssr30184	transcription start site region 30184	422 bp downstream
Tssr30185	transcription start site region 30185	509 bp upstream
Tssr30186	transcription start site region 30186	545 bp upstream
Tssr30187	transcription start site region 30187	1082 bp upstream
Tssr30188	transcription start site region 30188	1097 bp upstream
Tssr34202	transcription start site region 34202	98 bp downstream
Tssr34203	transcription start site region 34203	983 bp downstream