rs580006117 SNP Detail

Summary

• ID
  rs580006117
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  142
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr13:88970638 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        GCAGG GACAGGGGTG GGGGTGGGGG
  W
  GGGGGCTAAG GGGTCTGTCA ACCTG                                      
  
  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	129P2/OlaHsd	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	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	SJL/J	SM/J	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss922006058	MGP_WTSI_13_88822519	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T	T	T	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	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	SJL/J	SM/J	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs580006117					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T	T	T	T	T	T	T

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
ss922006058	MGP_WTSI_13_88822519	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:88970638 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5919	CpG island 5919	237 bp distal
Cpgi5920	CpG island 5920	1119 bp proximal
Edil3	EGF-like repeats and discoidin I-like domains 3	within coordinates
Gm38504	predicted gene, 38504	1665 bp upstream
Rr483401	regulatory region 483401	867 bp distal
Rr483402	regulatory region 483402	1239 bp distal
Tssr120562	transcription start site region 120562	999 bp downstream
Tssr120563	transcription start site region 120563	939 bp downstream
Tssr120564	transcription start site region 120564	928 bp downstream
Tssr120565	transcription start site region 120565	916 bp downstream
Tssr120566	transcription start site region 120566	896 bp downstream
Tssr120567	transcription start site region 120567	843 bp downstream
Tssr120568	transcription start site region 120568	835 bp downstream
Tssr120569	transcription start site region 120569	800 bp downstream
Tssr120570	transcription start site region 120570	780 bp downstream
Tssr120571	transcription start site region 120571	758 bp downstream
Tssr120572	transcription start site region 120572	605 bp downstream
Tssr120573	transcription start site region 120573	577 bp downstream
Tssr120574	transcription start site region 120574	543 bp downstream
Tssr120575	transcription start site region 120575	1072 bp upstream
Tssr120576	transcription start site region 120576	1695 bp upstream
Tssr123374	transcription start site region 123374	724 bp upstream