rs249020098 SNP Detail

Summary

• ID
  rs249020098
• Variation Type
  SNP
• Alleles
  G/T

• 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
  Chr5:92111129 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGCTGCGAG CCGCCGGCGC
  CGGTGAGGAG CGGCCCCTCC CGCGGCTGCT CCGAAAGGGG GCGGGGCTCG GCGGCTGCGC
  GCGCAGGTCC GAGTGCCGGC GGCTGTCCCG GTCTCCTTTT TTCCCTGCGC CCCCTTTAGA
  AAATATTGTG CTGTCACCCA CCCAGGACTT AAGAACGCAA AGTGAAAAAC AAGTAGCCAC
  K
  CCACGCCCCC GTGGAACTCA CAAATGGGGA GGGGGAGAAC GCCACGGCAT TAGATGAGGT
  CACAACTTCC ACACTGGAAG GACAGTCCTG TGTGGTGTCC CTGGGGAAGG AGACGCTCGA
  GCTGAAAGTT GAATGGCAAA CAGTACGCCA GCAGGAGTTA GTGTGTACCA GACCTGTGGG
  AGAGAAAAAT CTGGCCCGTA                                            
  
  K = G/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	LG/J	LP/J	MA/MyJ	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
ss365873159	MGP_WTSI_5_92392296	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	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	LG/J	LP/J	MA/MyJ	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
rs249020098					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	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
ss365873159	MGP_WTSI_5_92392296	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:92111129 () rs orientation: forward

Symbol	Name	Function Class
Cpgi16049	CpG island 16049	within coordinates
Rchy1	ring finger and CHY zinc finger domain containing 1	202 bp upstream
Rr125457	regulatory region 125457	within coordinates
Rr367874	regulatory region 367874	within coordinates
Thap6	THAP domain containing 6	63 bp upstream
Tssr47269	transcription start site region 47269	842 bp downstream
Tssr47270	transcription start site region 47270	825 bp downstream
Tssr47271	transcription start site region 47271	797 bp downstream
Tssr47272	transcription start site region 47272	360 bp downstream
Tssr47273	transcription start site region 47273	328 bp downstream
Tssr47274	transcription start site region 47274	312 bp downstream
Tssr47275	transcription start site region 47275	47 bp upstream
Tssr47276	transcription start site region 47276	77 bp upstream
Tssr51828	transcription start site region 51828	1808 bp upstream
Tssr51829	transcription start site region 51829	1658 bp upstream
Tssr51830	transcription start site region 51830	977 bp upstream
Tssr51831	transcription start site region 51831	946 bp upstream
Tssr51832	transcription start site region 51832	530 bp upstream
Tssr51833	transcription start site region 51833	383 bp upstream
Tssr51834	transcription start site region 51834	165 bp upstream
Tssr51835	transcription start site region 51835	133 bp upstream