rs258259891 SNP Detail

Summary

• ID
  rs258259891
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr3:89300060 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGTGCCACTG GCCTGGGTCC
  AGCCCACCGT GCCAGGGGGG CGCGGAGCTG GGTGGGTGGG TGGGGACACG CGTTGTCCTA
  GTTATAGTCC GTCAGGGTTT CCATTCCCTC CATTCGGTCG GGTCTGGGGT CTCCCCCTAA
  AGTCACAAAA GCGACTGGGG GTAGGGGTAA GTTCAGTGCA GCTCACCCCC TCTCCATCCC
  R
  TAGCTCACAG TCTGTATGAT ATTAGAAGTG CAAAGAAAGT TTCTGGAGAC CCTCCGCTCA
  GAGTTGGGGG GAGGCCAATA GTCCATAGTT CTCTACCTTT CCTCCAAGTT AAAACCAATT
  CCAAAGACCC AGGAAAGCTA CAGGGAATGC GACTGGTTGA AATCTGGTGT GTGTGTGTGT
  ACGTGTGTGT ACAGGGGTCT                                            
  
  R = A/G
  

  
  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
ss358811613	MGP_WTSI_3_89196675	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	A	A	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	A	G	G	G
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
rs258259891					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	A	A	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	A	G	G	G

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
ss358811613	MGP_WTSI_3_89196675	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:89300060 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13427	CpG island 13427			210 bp distal
Cpgi13428	CpG island 13428			139 bp proximal
Cpgi13429	CpG island 13429			919 bp proximal
Gm15417	predicted gene 15417			within coordinates
Rr375331	regulatory region 375331			2 bp downstream
Rr397788	regulatory region 397788			812 bp upstream
Rr580069	regulatory region 580069			913 bp distal
Rr580070	regulatory region 580070			695 bp distal
Rr580071	regulatory region 580071			583 bp distal
Rr580072	regulatory region 580072			within coordinates
Rr580073	regulatory region 580073			599 bp proximal
Rr580074	regulatory region 580074			1948 bp proximal
Tssr30097	transcription start site region 30097			883 bp downstream
Tssr30098	transcription start site region 30098			545 bp downstream
Tssr30099	transcription start site region 30099			502 bp downstream
Tssr30100	transcription start site region 30100			1106 bp upstream
Tssr30101	transcription start site region 30101			1515 bp upstream
Tssr34133	transcription start site region 34133			382 bp downstream
Tssr34134	transcription start site region 34134			541 bp downstream
Tssr34135	transcription start site region 34135			876 bp downstream
Zbtb7b	zinc finger and BTB domain containing 7B			Intron
				Noncoding-Transcript-Variant