rs216880540 SNP Detail

Summary

• ID
  rs216880540
• 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
  Chr2:74528105 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGGGCAGCCC GGGCCCAGGA
  GCCTCCAACT GCTCCGGGGC TTTGGATAAT CGCCTAGGTG TGACTTAGAA GCCCGGCCCA
  GGGCTCAGAG CCCAGGAGTC GGAGAGCCAG AGTCCGGGTG GAGATCGCAG GACCCAGAGA
  GGCAAGAAGA GATGAACAAA TAGTCCCCAG CGCCTCCTGC GGCCGCAGTT AGGCCTGTGG
  Y
  CGCCGCCGCC ACCAGGGCGG GCTGAGCCGG GCCAGGCCGG GCTGGTGCGT GGACCTGGGC
  CCGGCAGCTC TAATTGCAAC GCTCCTGTTG ATGATGATTT TTTTTTTTTT AAATCACAGC
  AGCCCCCAGT TTAGCGGACT GATTTACTCC GGGTATTGGT AAATATGATC ACGTGGGCCG
  CGCGACCAAT GGTGGTGGCT                                            
  
  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	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
ss354484954	MGP_WTSI_2_74535818	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	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C
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
rs216880540					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	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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
ss354484954	MGP_WTSI_2_74535818	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:74528105 () rs orientation: forward

Symbol	Name	Function Class
Cpgi11798	CpG island 11798	823 bp distal
Cpgi11799	CpG island 11799	within coordinates
D2Mit35	DNA segment, Chr 2, Massachusetts Institute of Technology 35	1318 bp distal
D2Mit36	DNA segment, Chr 2, Massachusetts Institute of Technology 36	257 bp distal
D2Mit38	DNA segment, Chr 2, Massachusetts Institute of Technology 38	263 bp distal
D2Mit38.1	DNA segment, Chr 2, Massachusetts Institute of Technology 38.1	354 bp distal
D2Tfv10	DNA segment, Chr 2, Thomas F. Vogt 10	255 bp distal
D2Tfv11	DNA segment, Chr 2, Thomas F. Vogt 11	1908 bp proximal
Gm14396	predicted gene 14396	378 bp downstream
Gm28793	predicted gene 28793	175 bp upstream
Gm74919	predicted gene, 74919	577 bp upstream
Hoxd9	homeobox D9	mRNA-UTR
Igs15	intergenic site 15	within coordinates
Rr559357	regulatory region 559357	588 bp distal
Rr559358	regulatory region 559358	24 bp distal
Tssr18414	transcription start site region 18414	87 bp downstream
Tssr18415	transcription start site region 18415	10 bp downstream
Tssr18416	transcription start site region 18416	185 bp upstream
Tssr18417	transcription start site region 18417	208 bp upstream
Tssr18418	transcription start site region 18418	232 bp upstream
Tssr18419	transcription start site region 18419	253 bp upstream