rs239561390 SNP Detail

Summary

• ID
  rs239561390
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr5:121848025 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GATTCAAGGC TTTGCTTTCA
  TGTCAGGCTT CTTCAGGGTC ACTTTTTCAA GGACCACCAC ATCTAGGAAG GCTAACTTTC
  CCTCTCTCCA TGTTCTTGGG AAATAACAAT GACCTTTTAG AAAGTGTTCA CCAAATATGA
  CAATTTTTAT TTGGGCTATG TAGGTTAATT GAATTTCAAC TGGACTACTA GTAACTCTTA
  W
  ATACGTTCTA AGTTTTTCTT TTTAATTATT CACAGGTGGA CCAGGGGTGT GGAGCTGGAG
  AGGCAATGCT ATACTCCCTA TCTAAAACTG ACACCCCAGA TCCATTTTTC TCTCTTTTTT
  TTTTAAAGTC ATATTTATGG CCAGTCATGG TGAAGCAGGT CTTTGATCTC AGCAGGCAGG
  TGGATCTATG TGAGTTCCAG                                            
  
  W = A/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
ss366502134	MGP_WTSI_5_122159971	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T	A	T	T	T	T	T	A	T	T	T	T	T	T	A	T	T	T	T	T	T	T	A	T	T	T	T
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
rs239561390					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T	A	T	T	T	T	T	A	T	T	T	T	T	T	A	T	T	T	T	T	T	T	A	T	T	T	T

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
ss366502134	MGP_WTSI_5_122159971	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:121848025 () rs orientation: forward

Symbol	Name	Function Class
1700064N11Rik	RIKEN cDNA 1700064N11 gene	272 bp downstream
Atxn2	ataxin 2	1769 bp upstream
Cpgi16531	CpG island 16531	1067 bp proximal
Gm71700	predicted gene, 71700	1636 bp downstream
Rr619651	regulatory region 619651	446 bp proximal
Rr619652	regulatory region 619652	1493 bp proximal
Rr619653	regulatory region 619653	1697 bp proximal
Tssr48591	transcription start site region 48591	1823 bp upstream
Tssr48592	transcription start site region 48592	1946 bp upstream
Tssr53053	transcription start site region 53053	1493 bp downstream