rs253897990 SNP Detail

Summary

• ID
  rs253897990
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr12:46866896 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGAGGCAACA GCTGAGGGTG
  TACGCAGCTT CACACACTGC ACGAAACACA GATGAAGGCA TCTGGGCACC CACGACTTAC
  ATAGCTTCGG GCGGTTTCAG GATCCTGATC CTCAGCCCTT CCACACTGGA GGGGGCGGGA
  GGGGGATGCG GGAAGTGTGG CTAAGCTAGC ATTATAAAAG ACCCTAGAGG TTATCTAGTC
  M
  AGTCCTTCTG TAGATAAGGA AAGTGACTCA GGGTATTTTG TTCAAGGTCA TGCATCAAGT
  TAGTATTTTA AGTCCTGATG CTAGGAATCC GGGTTAGTGG AAAAGCCAAA GTCTGAAAAA
  CTGATTTCAA ACCCAATCAA GCTGTTCTGA CAGTGTGTCA TGGAAAAAGC CCTTATGTCA
  GTCATTAAAT GTTTACCACT                                            
  
  M = A/C
  

  
  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
ss385862585	MGP_WTSI_12_47921100	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	A	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
rs253897990					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	A	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
ss385862585	MGP_WTSI_12_47921100	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr12:46866896 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4580	CpG island 4580	101 bp distal
Gm60470	predicted gene, 60470	514 bp upstream
Nova1	NOVA alternative splicing regulator 1	753 bp upstream
Rr465708	regulatory region 465708	1195 bp distal
Rr465709	regulatory region 465709	1451 bp distal
Rr465710	regulatory region 465710	694 bp distal
Rr465711	regulatory region 465711	24 bp proximal
Tssr116214	transcription start site region 116214	1984 bp upstream
Tssr116215	transcription start site region 116215	1958 bp upstream
Tssr116216	transcription start site region 116216	1756 bp upstream
Tssr116217	transcription start site region 116217	1596 bp upstream
Tssr116218	transcription start site region 116218	1325 bp upstream
Tssr116219	transcription start site region 116219	1176 bp upstream
Tssr116220	transcription start site region 116220	1109 bp upstream
Tssr116221	transcription start site region 116221	1087 bp upstream
Tssr116222	transcription start site region 116222	1055 bp upstream
Tssr116223	transcription start site region 116223	1017 bp upstream
Tssr116224	transcription start site region 116224	909 bp upstream
Tssr116225	transcription start site region 116225	864 bp upstream
Tssr116226	transcription start site region 116226	742 bp upstream
Tssr116227	transcription start site region 116227	615 bp upstream
Tssr116228	transcription start site region 116228	596 bp upstream