rs239688932 SNP Detail

Summary

• ID
  rs239688932
• 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
  Chr4:62420795 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCTCCCTGTC TCACGCCCTC
  TCACCGTCCC CTGGCTTCTT AAGGTCACTG TCTCACCCCT CATCACGTTC CTCCCCACTG
  CCCTTATACT CATTATCACA ACCCAGGTGT TCTCTTTGCT TCTCATCTCT ATCCCCCGGC
  CCCCGCCTCC GTGGGATGGA GACACTTAGG GGACCTAGAC TAACTTGGGA ATGGCAATGG
  Y
  GGGGAGTGGG GTTAGGGCTC AGGCCGGCTC CCCAAACGCA GTGAGGACTC CAGCAAGGCT
  CTGTCCCTTT CTGTTCTGAG AGACCCCAGT TGGTTCTAGA AGGGAACTTC TTGTCTCACA
  CACACAGTTT GTTGACTGCA ATAACCTAGA CACTTGGTTT TAAGATAGGG TCTCACTATG
  CAGGCAAACG GGTCCTGAGC                                            
  
  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	B10.RIII-H2 H2-T18/(71NS)SnJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57L/J	C58/J	CAST/EiJ	CZECHII/EiJ	DBA/1J	FVB/NJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LP/J	MOLF/EiJ	NOD/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SM/J	SPRET/EiJ	ST/bJ	WSB/EiJ	ZALENDE/EiJ
ss361714290	MGP_WTSI_4_62163592	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	C	C	T	C	C	C
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	B10.RIII-H2 H2-T18/(71NS)SnJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57L/J	C58/J	CAST/EiJ	CZECHII/EiJ	DBA/1J	FVB/NJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LP/J	MOLF/EiJ	NOD/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SM/J	SPRET/EiJ	ST/bJ	WSB/EiJ	ZALENDE/EiJ
rs239688932					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	C	C	T	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
ss361714290	MGP_WTSI_4_62163592	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:62420795 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi14361	CpG island 14361			48 bp distal
Hdhd3	haloacid dehalogenase-like hydrolase domain containing 3			Intron
				Noncoding-Transcript-Variant
Rr593324	regulatory region 593324			1336 bp distal
Rr593325	regulatory region 593325			293 bp distal
Rr593326	regulatory region 593326			within coordinates
Tssr42008	transcription start site region 42008			376 bp upstream
Tssr42009	transcription start site region 42009			332 bp upstream
Tssr42010	transcription start site region 42010			298 bp upstream