rs252507433 SNP Detail

Summary

• ID
  rs252507433
• 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
  Chr7:45434746 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GACCCTGCCC CCCTCCAAGG
  GTCTGTTGGT CTCTGTCTGT CCCTCCTCCC CCTCCCTATT CTCCCCTCCC GCCTGGCAGC
  CAATGCAACC GGGAACCAGT TGCCATGACA ACGCTCCCTC CTTCCTCCTC CCACCCTTCC
  TCTGACAGGC TCTCTGCTCC CCCAATCCCG ATTGTCCTCG GGGGCGGGGC CCTCGTTCTC
  Y
  CCCCCCCCCA TCTTCCCCTC CCCCCTACCC CAGCAACCCC GGCTCCCCAG CTCCTCTCCT
  CCGTCCGCCT CTCCATCCCT TCATCCGTCT GTCCTTTCGA GGAGGGGGAG GGGGGTATCA
  GAACCAGTAA GCAACCCCTC CCTCCCCCTG TCCTGCATCT CCCGCCCCTC TCCTGGGCTG
  AGGGAGGCCA GGGTTGAGCG                                            
  
  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	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/10J	CAST/EiJ	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	MA/MyJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SJL/J	SM/J	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss371184863	MGP_WTSI_7_53040692	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	C	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	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/10J	CAST/EiJ	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	MA/MyJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SJL/J	SM/J	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs252507433					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	C	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
ss371184863	MGP_WTSI_7_53040692	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr7:45434746 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi19088	CpG island 19088			1153 bp distal
Cpgi19089	CpG island 19089			61 bp proximal
Cpgi19090	CpG island 19090			1156 bp proximal
Lmtk3	lemur tyrosine kinase 3			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr646575	regulatory region 646575			1365 bp distal
Rr646576	regulatory region 646576			664 bp distal
Rr646577	regulatory region 646577			within coordinates
Tssr66636	transcription start site region 66636			1590 bp downstream
Tssr66637	transcription start site region 66637			1378 bp downstream
Tssr66638	transcription start site region 66638			9 bp upstream
Tssr66639	transcription start site region 66639			248 bp upstream
Tssr72472	transcription start site region 72472			291 bp upstream