rs239396176 SNP Detail

Summary

• ID
  rs239396176
• 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
  Chr5:121850956 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCCAGGTAGG GTCAAGCCGG
  GTGTCCTGCA TATCTATCCC CCGCCCCGCA GACCCTGGGA AGGTGGGCGA CGGAGGCGAG
  GTGGGTGCCA GCGGCCTAAC GCACCCATCC CCCTTTAGAT CTGGGGCGGC GGGGTTCCCG
  CAGCGGGCCG TTCTTCCCCT CCCCCCCCCC AACTGGGGAA GGGGTGGGAG TGCCCGGCTC
  Y
  CTCCAGGCCC GCCTCCCTCC TTCCCCGCAA GGTCCCCTGC GCGCGGGTGG TGGCCGATCC
  GCATTGCTGT TCCTCGTCCG CGGAGCAGAA GGCGCCTTTG AATAGAGGTG GGCGAGGGCC
  GGACTCTTGA GGTGGGTTGG CCGCGGGCTC TGGACACGCA CCGCATTTTC CCTCCCAACC
  CCCCCCCCCC CCGGCCCAGT                                            
  
  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	LG/J	LP/J	MA/MyJ	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
ss366502174	MGP_WTSI_5_122162902	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	T	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	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	LG/J	LP/J	MA/MyJ	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
rs239396176					SNP	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	T	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	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
ss366502174	MGP_WTSI_5_122162902	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:121850956 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
1700064N11Rik	RIKEN cDNA 1700064N11 gene			within coordinates
Atxn2	ataxin 2			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Cpgi16531	CpG island 16531			within coordinates
Rr619651	regulatory region 619651			1439 bp distal
Rr619652	regulatory region 619652			1274 bp distal
Rr619653	regulatory region 619653			265 bp distal
Rr619654	regulatory region 619654			116 bp proximal
Rr619655	regulatory region 619655			574 bp proximal
Rr619656	regulatory region 619656			1470 bp proximal
Tssr48591	transcription start site region 48591			1034 bp downstream
Tssr48592	transcription start site region 48592			978 bp downstream
Tssr48593	transcription start site region 48593			843 bp downstream
Tssr48594	transcription start site region 48594			822 bp downstream
Tssr48595	transcription start site region 48595			418 bp downstream
Tssr48596	transcription start site region 48596			1282 bp upstream
Tssr53053	transcription start site region 53053			1414 bp upstream