rs258803945 SNP Detail

Summary

• ID
  rs258803945
• Variation Type
  SNP
• Alleles
  A/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
  Chr16:17437519 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCGAGGCAGC CCAGCACCGT
  GCGGTTTTCT CGGGTCCCCG CCGAGGCTGG CTCCGTTCCT CCTCGAGCTG TGGGGGACTT
  GGGCCTCCCG ACAGCTCGGC CTGTACGGGG CCGGCCGGGA GCCCAGGGCC CGGCTGCAAC
  CTCACGCCGC TCTCCAGGGT CATGGCTTTC TGCCGCCTTC CTGCGTGGTC CTCGCAGACG
  R
  TCCGGGTAGG GGGTGGATGA ACGCTCGATG TGAGAGTTGA GGGAGGGGGA CTTGGAGGGA
  AAGTTGAACC TTGGGCTCAG CTAGCGATGT TTGGTAGTAG AACTCGTTGT GGGTTTAGGT
  TCTACCTTGC GACTTTCCCG AGCCTCAGTT TCCTCCTCTG TAATGTAATA GGGTAGTCTC
  GAAACTTTGG AGGTATAGGA                                            
  
  R = A/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
ss395522391	MGP_WTSI_16_17619748	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	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	A	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
rs258803945					SNP	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	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	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
ss395522391	MGP_WTSI_16_17619748	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr16:17437519 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi8019	CpG island 8019			within coordinates
Gm59742	predicted gene, 59742			290 bp upstream
Rr370058	regulatory region 370058			241 bp downstream
Rr391410	regulatory region 391410			1026 bp downstream
Rr512417	regulatory region 512417			1350 bp distal
Rr512418	regulatory region 512418			963 bp distal
Rr512419	regulatory region 512419			within coordinates
Smpd4	sphingomyelin phosphodiesterase 4			Coding-NonSynonymous
				Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
				Noncoding-Transcript-Variant
Tssr137314	transcription start site region 137314			268 bp downstream
Tssr137315	transcription start site region 137315			205 bp downstream
Tssr137316	transcription start site region 137316			176 bp downstream
Tssr137317	transcription start site region 137317			157 bp downstream
Tssr137318	transcription start site region 137318			141 bp downstream
Tssr137319	transcription start site region 137319			107 bp downstream