rs240516004 SNP Detail

Summary

• ID
  rs240516004
• Variation Type
  SNP
• Alleles
  C/G

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr3:143911484 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACTGACAGAG CAGAATCCCA
  ACTACTCCCC GGCTCTGCCG CCGACGTCAG CGACCCTCAG CCACTGGGCG GCCGGATTGT
  TCAGGCGGAA TAATAAAACC TGCCAATCCG GGGAAGGACA AAGGGTGACT GAAACGAGAC
  TCGGGGGGCG GGGAGCGAGG CGGGCGGCTG AGCCGGCCGG GCCCGGGAAG GCGGGGGGGG
  S
  CCGGGGTCGG GGCACGAGAA GGGACCCGGG TGGCGCGGGG GACGCGGCCA GCGAGCGCGT
  GCCCAGGCTC AGGACCACAC CTGCCTGCCC AGCGCGCGAG GACGCGTGGA GCCCGCCCCC
  GCAGGGCCTC GGGGATCGCC TTCCCTGGCT CAGAGAACAG ACCCTCGGGA AACTTACTTT
  CCCAGAAATG GGTCTCTTCC                                            
  
  S = C/G
  

  
  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	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C58/J	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss360062423	MGP_WTSI_3_143868687	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	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
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	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C58/J	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs240516004					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	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

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
ss360062423	MGP_WTSI_3_143868687	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:143911484 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13895	CpG island 13895	within coordinates
Lmo4	LIM domain only 4	503 bp upstream
Rr398096	regulatory region 398096	within coordinates
Rr406521	regulatory region 406521	1181 bp distal
Rr586601	regulatory region 586601	514 bp distal
Rr586602	regulatory region 586602	13 bp distal
Rr586603	regulatory region 586603	1741 bp proximal
Tssr35968	transcription start site region 35968	845 bp upstream
Tssr35969	transcription start site region 35969	794 bp upstream
Tssr35970	transcription start site region 35970	742 bp upstream
Tssr35971	transcription start site region 35971	515 bp upstream
Tssr35972	transcription start site region 35972	193 bp upstream
Tssr35973	transcription start site region 35973	220 bp downstream