rs249652966 SNP Detail

Summary

• ID
  rs249652966
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:143909397 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGCAAAGAA CCGGGGTGAG
  GGAACGAAAG AAGGACTCTG GTTCCTTAAA TAGGCCGATT TTAAACACAT TTCCTCCGAA
  AGAGTCCCGG AACGTGTGTC CAGTGACCGC ACAATAAACC AGAATAAGAA CTGCACCAAT
  TAAGCTGTAA CAAAACCCTG AGACTCTGGA ACCAGGACCG CTCTAAAACC CATTAGCATT
  S
  CATTTATCCG AATGCATCAT ACCTTTATGT AAATTGATTT CTCTGATGCA TTTACTCGAG
  GAATTGCTTT TTGTTACAAT TTCAGCCCTG ACCCAAATGA ATCTGCATTT CCTGCCCTAG
  GTCTTTAAAC TGCCCCCCCC CAACGTTTTA ATCGCTCCGA ATTCCTTTTT TAAAAGGGAG
  GGGGAGGGAG GAGATTCCAA                                            
  
  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	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
ss360062410	MGP_WTSI_3_143866600	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	G	G	G	G	G	C	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	C	C	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G
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
rs249652966					SNP	C	C	C	G	G	G	G	G	C	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	C	C	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G

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
ss360062410	MGP_WTSI_3_143866600	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:143909397 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13894	CpG island 13894	975 bp distal
Cpgi13895	CpG island 13895	914 bp proximal
Lmo4	LIM domain only 4	Intron
Rr398096	regulatory region 398096	1843 bp upstream
Rr406521	regulatory region 406521	within coordinates
Rr586599	regulatory region 586599	1630 bp distal
Rr586600	regulatory region 586600	750 bp distal
Rr586601	regulatory region 586601	251 bp proximal
Rr586602	regulatory region 586602	1574 bp proximal
Tssr35963	transcription start site region 35963	1683 bp upstream
Tssr35964	transcription start site region 35964	1667 bp upstream
Tssr35965	transcription start site region 35965	1291 bp upstream
Tssr35966	transcription start site region 35966	1269 bp upstream
Tssr35967	transcription start site region 35967	1021 bp upstream
Tssr35968	transcription start site region 35968	1222 bp downstream
Tssr35969	transcription start site region 35969	1250 bp downstream
Tssr35970	transcription start site region 35970	1320 bp downstream
Tssr35971	transcription start site region 35971	1529 bp downstream
Tssr35972	transcription start site region 35972	1871 bp downstream