rs259259842 SNP Detail

Summary

• ID
  rs259259842
• 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
  Chr3:108193042 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGCAGATAGT CACTTTAAGC
  CTGCTCTTGT CAAGACTTTC AAAGATTTGG TGCTTCTGTT TTGGGCACAA GAGTCTGAAC
  CTTGACACAC TGCTGCATTG AGAAATTGTT AGGAAAGTCT TGGTTTCAGC AACTAGGACA
  TCTTCCTCCT CCTCCTCTTT TTTTTTTTTT CCTAAAATTA ACAATTGTTG CAACCCATGT
  R
  TGAGAAAGGC ATTTTCAGTT CAGTGTATTT TCTGTGTTAT GTCTTTCCTT TTTTTCCAAA
  GAAAGACTGT TCATGAAGGT GGCCGTGGGT GGCTGGAGTT CTGTACCCGT TCTTTGTTTA
  CATTCCATTT CAGTATCCCC CCAAATCTCA GTGTCCCCTT GGGGTTTCTT TTGAGATCCA
  TACTTGTTAG TTGTGACCTA                                            
  
  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
ss359161894	MGP_WTSI_3_108088644	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	A	A	A	A	G	A	A	A	A	G	G	A	A	A	G	G	A	G	A	A	A	G	A	A	A	A	A	A	A	A
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
rs259259842					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	A	A	A	A	G	A	A	A	A	G	G	A	A	A	G	G	A	G	A	A	A	G	A	A	A	A	A	A	A	A

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
ss359161894	MGP_WTSI_3_108088644	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:108193042 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13698	CpG island 13698	849 bp distal
Gm12523	predicted gene 12523	883 bp upstream
Gm19343	predicted gene, 19343	Noncoding-Transcript-Variant
Gm66045	predicted gene, 66045	within coordinates
Rr583193	regulatory region 583193	1625 bp distal
Rr583194	regulatory region 583194	1928 bp distal
Rr583195	regulatory region 583195	793 bp distal
Rr583196	regulatory region 583196	1814 bp proximal
Sort1	sortilin 1	Intron
Tssr31239	transcription start site region 31239	1652 bp downstream
Tssr31240	transcription start site region 31240	1626 bp downstream
Tssr31241	transcription start site region 31241	1584 bp downstream
Tssr35139	transcription start site region 35139	1179 bp upstream
Tssr35140	transcription start site region 35140	1147 bp upstream
Tssr35141	transcription start site region 35141	1104 bp upstream