rs239861035 SNP Detail

Summary

• ID
  rs239861035
• Variation Type
  SNP
• Alleles
  G/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
  Chr3:90415005 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTAATGTTTT CTTAGGAAGG
  AGCTGAAGTT GCTGTTGGCT GCCTCACCGC TCATTTAGAG ACATCTTGGT GGTGCTTTTT
  AGCACAACTT TCGGCGCTGA CTGTGCAGCC ATCTTCAAAT CCCGAGAATC TACAAAGGAC
  AATATGCATG AGTCAATCAA AATAATGAAG CTTGCATTTT CACAAGAAGC AAGGCATAAA
  K
  CTGTTAAAGG CCTATATTTT TAACTCTGAA GATGGTATCA TGAGATCTTA AGTTTGCCAG
  GTGGTGGTGG TGGTGCACTT TTAGTCACAG CATTCCTGAA GCAGAGGTAG GTGGCTCCCT
  TTGAGTTCGA GGCTAGCCAG GTCTACATAG CAAGTTCCAG GACAGCCACG GCTACCTAAG
  AGAAACCCTG TGAGGTGGGG                                            
  
  K = G/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
ss358833578	MGP_WTSI_3_90311620	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	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	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
rs239861035					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	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
ss358833578	MGP_WTSI_3_90311620	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90415005 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Chtop	chromatin target of PRMT1			Intron
				Noncoding-Transcript-Variant
Cpgi13465	CpG island 13465			1063 bp proximal
Gm56783	predicted gene, 56783			1266 bp upstream
Rr397813	regulatory region 397813			1678 bp upstream
Rr580381	regulatory region 580381			776 bp proximal
Rr580382	regulatory region 580382			1204 bp proximal
Rr580383	regulatory region 580383			1742 bp proximal
Tssr30207	transcription start site region 30207			1379 bp upstream
Tssr30208	transcription start site region 30208			1942 bp upstream
Tssr34235	transcription start site region 34235			1317 bp upstream
Tssr34236	transcription start site region 34236			361 bp downstream
Tssr34237	transcription start site region 34237			1029 bp downstream
Tssr34238	transcription start site region 34238			1758 bp downstream
Tssr34239	transcription start site region 34239			1819 bp downstream