rs108509100 SNP Detail

Summary

• ID
  rs108509100
• Variation Type
  SNP
• Alleles
  G/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
  Chr17:85920797 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGACACAGGA TGGAGGTGGA
  GGTGGAAAGA GCGAAGAAAA AGAAGCAAGA TTGGATGAGG ATGTGCAGAT GGGTGAGAAT
  GAGGTGGAGA TGGAGTTGGG GTTGCATCGC AGGGCACCAA CTATTCACCC TTCTATGGAG
  AGGTGCGTCT GGCTGCTCCG TTACCCGCCC CCCCCCCGCC CAATAAAGCT AATGATGTAG
  K
  GATTTAGGAG GGGTGAGGGG CTGGGCGAAA GGAAGGAGGG GAGGGGATGG GGGGGGACGC
  GCGCCCCAGG AGCGAAAGCA AACTGCTAGC TGCAGAGGCG CTACCGCAGT TCAGGCTTCC
  CAACAGGTTA GCTAGCCTAG GATCCACCCG GTATTTCGCA GGAAGGGGGG GGGGGCGTTG
  AGATAGCTAG AGGAGGGGAA                                            
  
  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	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	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	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	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
ss399316275	MGP_WTSI_17_86012709	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	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	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	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
rs108509100					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	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
ss399316275	MGP_WTSI_17_86012709	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:85920797 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9587	CpG island 9587	297 bp distal
Cpgi9588	CpG island 9588	235 bp proximal
Cpgi9589	CpG island 9589	1310 bp proximal
Gm55781	predicted gene, 55781	1606 bp downstream
Gm55782	predicted gene, 55782	13 bp upstream
Gm55783	predicted gene, 55783	1293 bp upstream
Gm55784	predicted gene, 55784	1591 bp upstream
Rr340291	regulatory region 340291	within coordinates
Six3	sine oculis-related homeobox 3	239 bp upstream
Six3os1	SIX homeobox 3, opposite strand 1	within coordinates
Tssr146084	transcription start site region 146084	131 bp downstream
Tssr146085	transcription start site region 146085	63 bp upstream
Tssr149705	transcription start site region 149705	992 bp upstream
Tssr149706	transcription start site region 149706	305 bp upstream
Tssr149707	transcription start site region 149707	1433 bp downstream
Tssr149708	transcription start site region 149708	1631 bp downstream
Tssr149709	transcription start site region 149709	1678 bp downstream
Tssr149710	transcription start site region 149710	1767 bp downstream
Tssr149711	transcription start site region 149711	1795 bp downstream