rs250020467 SNP Detail

Summary

• ID
  rs250020467
• Variation Type
  SNP
• Alleles
  A/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
  Chr2:78700088 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGGGCGGGCG CAGTGGCGCG
  GTCCCCTGCG CGGCCCTCCC CACAAAGGAC CGCGGAGCTG CGTGGCCCAG TGCTCGCCCC
  GGGGCGGGCC GCGCCAATTT GTTGCACTTC TGGGGGTGGG GGGTGGGGGA GGGCTTTTGT
  TTGTTTGTTT GTTTTGCCCT CGGGGTTTTG GCCGCTTTGC GGATTTTTTT TTTTTTTTTT
  W
  AAATAACAAA ATGTCGGTCG GTGAGGGAGG AATTGAGCGG GGAACGTCGA TGGCACCGGG
  AGCTTTGCAG AAGGTGCAGT TTGGAGCCTG CCCTTCCCCG GGTGGCAGCT CGGGCTCGGC
  CCGGTGAATC CTCGCCGCCG GCCGTGGGGA CGGCTGTGGG GCGGCTGCCA GTTGATTTTT
  TTTTTTTTTT TAAATTCGAG                                            
  
  W = A/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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57L/J	C58/J	CBA/J	CE/J	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
ss354575690	MGP_WTSI_2_78709901	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A
SNP Consensus Information
SNP					Consensus Type	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57L/J	C58/J	CBA/J	CE/J	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
rs250020467					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A

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
ss354575690	MGP_WTSI_2_78709901	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:78700088 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11839	CpG island 11839			within coordinates
Rr559887	regulatory region 559887			687 bp distal
Rr559888	regulatory region 559888			812 bp distal
Rr559889	regulatory region 559889			56 bp distal
Rr559890	regulatory region 559890			529 bp distal
Tssr18521	transcription start site region 18521			988 bp downstream
Tssr18522	transcription start site region 18522			936 bp downstream
Tssr18523	transcription start site region 18523			635 bp downstream
Tssr18524	transcription start site region 18524			602 bp downstream
Tssr18525	transcription start site region 18525			581 bp downstream
Tssr18526	transcription start site region 18526			482 bp downstream
Tssr18527	transcription start site region 18527			423 bp downstream
Tssr18528	transcription start site region 18528			368 bp downstream
Tssr18529	transcription start site region 18529			233 bp downstream
Ube2e3	ubiquitin-conjugating enzyme E2E 3			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
				Noncoding-Transcript-Variant