rs261685594 SNP Detail

Summary

• ID
  rs261685594
• 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
  Chr5:134341895 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CACAAAGCCA TAAGGCAAGG
  AGGGGGTGTG CTAAAGGGAG CTGCGAGGTG GGCGGCAGGA AAGGAATGTA AGAGGCCCAA
  GAATTTCGGA GCCAGACCTG CGATCCCAGC ACTTAGCAGA TGAATACAGG AGAGATCAGA
  AGCTCCAGGG AAGCCTCCAC TACAAAGCGA GTTCCAGGCC AGCCTGAGAT ACAAAACATC
  Y
  TACTTAAAGT TTTACTTTTT TTTTTTTTTA AATTAAGCAA AACTTGGGCG AGACTTGGTT
  GCACTTGGTC TTTAACCCCA ACGCTGGCGA GGCAGAAGCA GGCGGATCTC TGTATTCCAG
  ATCAGCCTGC TCTACCTAAG AGTTCCAGAG CAGCCATACT GAGATTTCCC GCACCTCAAA
  AAAAAAAAAA AAAAAAAAAA                                            
  
  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
ss366807825	MGP_WTSI_5_134788911	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
rs261685594					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
ss366807825	MGP_WTSI_5_134788911	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:134341895 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi16718	CpG island 16718			352 bp proximal
Gm71534	predicted gene, 71534			1761 bp upstream
Gm71761	predicted gene, 71761			330 bp downstream
Gtf2i	general transcription factor II I			Intron
				mRNA-UTR
Rr378666	regulatory region 378666			1728 bp upstream
Rr399401	regulatory region 399401			425 bp upstream
Rr621987	regulatory region 621987			674 bp distal
Rr621988	regulatory region 621988			within coordinates
Rr621989	regulatory region 621989			724 bp proximal
Rr621990	regulatory region 621990			1631 bp proximal
Rr621991	regulatory region 621991			1772 bp proximal
Tssr1657	transcription start site region 1657			1915 bp downstream
Tssr49086	transcription start site region 49086			605 bp upstream
Tssr49087	transcription start site region 49087			632 bp upstream
Tssr49088	transcription start site region 49088			938 bp upstream
Tssr49089	transcription start site region 49089			1905 bp upstream
Tssr53628	transcription start site region 53628			492 bp upstream
Tssr53629	transcription start site region 53629			174 bp downstream
Tssr53630	transcription start site region 53630			746 bp downstream
Tssr53631	transcription start site region 53631			1365 bp downstream
Tssr53632	transcription start site region 53632			1402 bp downstream
Tssr53633	transcription start site region 53633			1415 bp downstream
Tssr53634	transcription start site region 53634			1444 bp downstream
Tssr53635	transcription start site region 53635			1473 bp downstream
Tssr53636	transcription start site region 53636			1517 bp downstream
Tssr53637	transcription start site region 53637			1596 bp downstream
Tssr53638	transcription start site region 53638			1637 bp downstream