rs238427229 SNP Detail

Summary

• ID
  rs238427229
• 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
  Chr3:41521283 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAAACGATTC ATTGGTTTTT
  AGACCACACT AGTTAAGTCC GTAGAATGGA CTGTACCTGG AGAAAGGAAG GGTTCATTGG
  ACTTAACTCG GTTCACGTTG GGGATTTCTT GTAGGTAGTA GTCGATCACA TCCGCAGTTG
  AGGTGACCTG CTCTGTGCAA TTCAGAATTT TTAGTCTTTC TTACCACAAA GGTCTTAAGT
  Y
  CCGCTTACTA TAACTTTTTT TACATGTTTG AAAATCTTTA TTACATTTAG TATTGTTGAC
  CTTTATTACA TTTAGTATTG TTGACCAAGG GCATTGTCAC AGAAAACTGA AAAACGTAGA
  TGAAGGGGGC ATGTACTATG TCTGCTTAGA AGCAAGTAGA GGTTTATACT CACCTTAGAT
  TCAAACCTGT CTTAAATGCC                                            
  
  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	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
ss357685360	MGP_WTSI_3_41370770	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	C	T	C	C	T	T	T	T	C	T	T	T	T	T	C	T	T	T	T	C	T	C	T	T	T	T	T	T	T	C	T	T	T	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	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
rs238427229					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	C	C	T	T	T	T	C	T	T	T	T	T	C	T	T	T	T	C	T	C	T	T	T	T	T	T	T	C	T	T	T	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
ss357685360	MGP_WTSI_3_41370770	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:41521283 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Jade1	jade family PHD finger 1			Intron
				Noncoding-Transcript-Variant
Rr575969	regulatory region 575969			1918 bp distal
Rr575970	regulatory region 575970			680 bp distal
Rr575971	regulatory region 575971			1627 bp distal
Rr575972	regulatory region 575972			1055 bp distal
Rr575973	regulatory region 575973			179 bp distal
Rr575974	regulatory region 575974			647 bp distal
Tssr29004	transcription start site region 29004			1942 bp downstream
Tssr29005	transcription start site region 29005			1915 bp downstream
Tssr29006	transcription start site region 29006			1840 bp downstream
Tssr33082	transcription start site region 33082			1304 bp upstream