rs108558489 SNP Detail

Summary

• ID
  rs108558489
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  132
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr17:63188783 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GACATACACC GGCCCGCCGG
  GCCCGGCTCA GTGTCGGCGC CGCGGTCTGC ACGGGCTTCC TCCGCCGCGC TGGGCCCTCA
  CCGTGCGCCC CGCTTTGTTC CAAGTTACTT TGGCGGCCGG AGAGAAACTG CAGGAGGAGG
  GCGCTGTGTG GAGGGGGGCG GGGGGGGGGG CGTCCTCACA CTGGTGTCCC CAGGAGGCTG
  R
  AAGCAGTCCG GAGCCTCCCT TCTGTGCCTT GGCCAGGCGA CCCCCCGCAA GGCTCGCAGG
  AGTCCTGTGG ACTGCGGTAC CCGGAGGTGC GCAGAGAAGA GTGGCGATCT GGATCCGCAA
  GCCCGGCTCT GCCGGAGTCC TGGAACTGCC CAAAGCCGCA GCCGAGCGCT CAGGCGAGGA
  GAGGAGGAGC GGGTCTTGCT                                            
  
  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	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	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	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
ss398716699	MGP_WTSI_17_63231137	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	G	G	G	A	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	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	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	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
rs108558489					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	G	G	G	A	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
ss398716699	MGP_WTSI_17_63231137	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:63188783 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9409	CpG island 9409	within coordinates
Efna5	ephrin A5	471 bp upstream
Gm64917	predicted gene, 64917	within coordinates
Rr340084	regulatory region 340084	within coordinates
Tssr145535	transcription start site region 145535	1605 bp upstream
Tssr149003	transcription start site region 149003	903 bp upstream
Tssr149004	transcription start site region 149004	435 bp upstream
Tssr149005	transcription start site region 149005	330 bp upstream
Tssr149006	transcription start site region 149006	59 bp upstream
Tssr149007	transcription start site region 149007	313 bp downstream
Tssr149008	transcription start site region 149008	638 bp downstream
Tssr149009	transcription start site region 149009	875 bp downstream
Tssr149010	transcription start site region 149010	923 bp downstream
Tssr149011	transcription start site region 149011	1054 bp downstream
Tssr149012	transcription start site region 149012	1195 bp downstream