rs259860480 SNP Detail

Summary

• ID
  rs259860480
• 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
  Chr5:134341628 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAAAGAAAAA GAAAAAGAAA
  GAAAAGCCTG CTATAGGAAA TACCAACCAC CCCAAATCCC AAGCCAGATG TTTATGGGTA
  CTGTACCTGC ACCTTATTTA CACTGCACCC CCTTATTTAC AAACTAACTT TGCCCAGGAA
  ACCAGGCAGG CTGGGCCAGC ACAGCAGCCG GAAAAGATAG CCGGCCTTGC ACCTCATCCC
  Y
  TGTTCCCCAA ATCGGCGGGC ACTCCACCAG CACCATCTCA GATCTGCACT CTCAGCAGCC
  AAGGAGCACA AAGCCATAAG GCAAGGAGGG GGTGTGCTAA AGGGAGCTGC GAGGTGGGCG
  GCAGGAAAGG AATGTAAGAG GCCCAAGAAT TTCGGAGCCA GACCTGCGAT CCCAGCACTT
  AGCAGATGAA TACAGGAGAG                                            
  
  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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss366807824	MGP_WTSI_5_134788644	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs259860480					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	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
ss366807824	MGP_WTSI_5_134788644	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:134341628 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi16718	CpG island 16718			619 bp proximal
Gm71761	predicted gene, 71761			597 bp downstream
Gtf2i	general transcription factor II I			Intron
				mRNA-UTR
Rr378666	regulatory region 378666			1995 bp upstream
Rr399401	regulatory region 399401			692 bp upstream
Rr621987	regulatory region 621987			407 bp distal
Rr621988	regulatory region 621988			within coordinates
Rr621989	regulatory region 621989			991 bp proximal
Rr621990	regulatory region 621990			1898 bp proximal
Tssr49086	transcription start site region 49086			872 bp upstream
Tssr49087	transcription start site region 49087			899 bp upstream
Tssr49088	transcription start site region 49088			1205 bp upstream
Tssr53628	transcription start site region 53628			225 bp upstream
Tssr53629	transcription start site region 53629			441 bp downstream
Tssr53630	transcription start site region 53630			1013 bp downstream
Tssr53631	transcription start site region 53631			1632 bp downstream
Tssr53632	transcription start site region 53632			1669 bp downstream
Tssr53633	transcription start site region 53633			1682 bp downstream
Tssr53634	transcription start site region 53634			1711 bp downstream
Tssr53635	transcription start site region 53635			1740 bp downstream
Tssr53636	transcription start site region 53636			1784 bp downstream
Tssr53637	transcription start site region 53637			1863 bp downstream
Tssr53638	transcription start site region 53638			1904 bp downstream