rs236933400 SNP Detail

Summary

• ID
  rs236933400
• 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
  Chr3:41517929 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TACCAGCGGC TCCCCGCCCC
  ACCGTCCCCA CCCTCTCCTT TGGCTGGGGA TTAAAGTGCT CCCCCCTGTG GCAGCAGTGA
  CCCAGAAATG AGTCTGCGTC CCCGCGCTTC CTCCGCCGCC AGCCGCACGC CCTACCGGGA
  GGGCCTGGGC GCGCCGGGCC GGCCGAGCGC GCGGGCGACA GCAGGGGCCC GCCCGGCTCC
  Y
  CGCGGGGCCT CGGTGGCCCG GACCCATGCG GCGCGGCGCG CAGCCCGCGG AGGCCCAGCC
  CGTGCGCAGC AGGTACGCGG GGGCGGAGGC GCGGGGGCGC GCGGGTCGGG GTGCGCGTCT
  CAGGCCGCGG CCGCGGCGGC TGCAGGACGA GCCGAGAGGC TCAGCCATAT TTGATGGTTT
  TGTTGCTTCG CTCGGGAGTT                                            
  
  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	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SPRET/EiJ	SWR/J	WSB/EiJ
ss357685334	MGP_WTSI_3_41367416	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	C	C	C	C	C	C	C	T	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SPRET/EiJ	SWR/J	WSB/EiJ
rs236933400					SNP	C	C	C	C	C	C	C	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

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
ss357685334	MGP_WTSI_3_41367416	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:41517929 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm31266	predicted gene, 31266			157 bp upstream
Jade1	jade family PHD finger 1			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr575965	regulatory region 575965			within coordinates
Rr575966	regulatory region 575966			125 bp distal
Rr575967	regulatory region 575967			194 bp proximal
Rr575968	regulatory region 575968			448 bp proximal
Rr575969	regulatory region 575969			870 bp proximal
Rr575970	regulatory region 575970			1437 bp proximal
Rr575971	regulatory region 575971			1706 bp proximal
Tssr29001	transcription start site region 29001			1770 bp downstream
Tssr29002	transcription start site region 29002			102 bp downstream
Tssr29003	transcription start site region 29003			28 bp downstream
Tssr29004	transcription start site region 29004			1378 bp upstream
Tssr29005	transcription start site region 29005			1427 bp upstream
Tssr29006	transcription start site region 29006			1503 bp upstream