rs258562959 SNP Detail

Summary

• ID
  rs258562959
• 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
  Chr3:142408130 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTATAAACAC TCTAGAACCC
  GGCTAACAGG TATGGCATGT GGTGAAAATA AAGGGAGCAG TGTTATTTAT CAAGAGGCTG
  TCTCTGATAA ATCTTTCTTG AGCTTTTAGG TAACCTGAAG GTTCCTGACG TTTTCAGATT
  GCTAACACAA CTATTCTTTA TGTCTGTATA CCTCCTATGG GTCAGATTTG TAACTTGGTA
  R
  TTTGAGTGGT AAATTCAGAG CACTAAACTT TAACCATGTT TAAACTGAGT TGTGAATGCT
  TTGCCTACCT TTGAGATTTG CGTTTTTCCT TCAACTTTTA ACCTCTAGGT TGCCCACGGT
  CTTCCAGTTC TGAATCAGTC CACCCTAGAG ATGATAAAAT GGTAGTTTTA GTTTTCTGTT
  GATCCGTGTG TATCTAACAT                                            
  
  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
ss360026661	MGP_WTSI_3_142365333	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	G	G	G	G	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
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
rs258562959					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	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

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
ss360026661	MGP_WTSI_3_142365333	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:142408130 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13889	CpG island 13889	914 bp distal
Gm15540	predicted gene 15540	within coordinates
Kyat3	kynurenine aminotransferase 3	Intron
Rr375835	regulatory region 375835	1764 bp upstream
Rr398089	regulatory region 398089	1270 bp downstream
Rr586467	regulatory region 586467	1279 bp distal
Rr586468	regulatory region 586468	294 bp distal
Rr586469	regulatory region 586469	1233 bp distal
Rr586470	regulatory region 586470	510 bp distal
Tssr32246	transcription start site region 32246	1326 bp downstream
Tssr32247	transcription start site region 32247	1304 bp downstream
Tssr32248	transcription start site region 32248	1264 bp downstream