rs108209400 SNP Detail

Summary

• ID
  rs108209400
• Variation Type
  SNP
• Alleles
  C/T

• 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
  Chr17:47923157 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATAAGAGTGG CGCGAGGAGA
  AAGTGACTTT TCTATTTTGC TTGCAGTTAC AGACTTTGAA TTGGCCATTT TAAGGTGTTG
  GGGCTAGTGA CAGAGGTAGG AGGAAAGGAG CGGTTGGGAG TTTGGAGTTC GGAGTACCAG
  GCAGAGACAA TTTTTCGAGC TGGGTGTCTC ACTGTGTAGG CTTGGGAGGC CCGGAACTCA
  Y
  TCTGTAGAAC AGGCTGGACT CGAATTCACA GAGATCCACC TGCCTCTCTC TGCCTCTCAA
  GCGCACGGAT GAAACGGACG CGAGCCACCA TCGCCTGGGC TTCAGACAGT TTTGATTGAC
  TTTTATCTTA AACATGTTTG AAGTCTCACT TGATAAAAAG GCAGTTGGTA AGGTTTGGGC
  ACCGTGCTTT TCTGGGTATT                                            
  
  Y = C/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	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
ss398350567	MGP_WTSI_17_47749181	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	T	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	T	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
rs108209400					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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	T	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
ss398350567	MGP_WTSI_17_47749181	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:47923157 () rs orientation: forward

Symbol	Name	Function Class
Bysl	bystin-like	740 bp upstream
Cpgi9265	CpG island 9265	402 bp distal
Gm20517	predicted gene 20517	within coordinates
Med20	mediator complex subunit 20	within coordinates
Rr331713	regulatory region 331713	1444 bp proximal
Rr339937	regulatory region 339937	within coordinates
Rr405326	regulatory region 405326	563 bp downstream
Tssr5145	transcription start site region 5145	981 bp upstream
Tssr144986	transcription start site region 144986	664 bp downstream
Tssr144987	transcription start site region 144987	613 bp downstream
Tssr144988	transcription start site region 144988	596 bp downstream
Tssr148446	transcription start site region 148446	1054 bp upstream
Tssr148447	transcription start site region 148447	988 bp upstream
Tssr148448	transcription start site region 148448	798 bp upstream
Tssr148449	transcription start site region 148449	688 bp upstream