rs229990696 SNP Detail

Summary

• ID
  rs229990696
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr17:85924001 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AACACTAGTC CAGATGCACC
  TTTAAGGAGC TGGGCTGGTT AATTGATTTA CAGCTGGCCC TGTGGGGGAA AGTTCGTGGT
  ACCCACGGGT GAGCTAGACC TAGTGGCTGT AAAATCCACT TCCCTACTTT CCCACTCACA
  CAACCATTTT TAGCTTGCAT ACTCCAAGTA GCTGGCTTCT TTCTCCAGGG GCTAGATCAC
  Y
  GTGTAGCCAG CTAGACTGGG TTTGTGCCCA CCCTCCTGGG CCCGGTGGTG GGAGGTGTTC
  AGGTCCTAGA CGGAGCCAAA CCCCTCTTGT TTGAGGATGT GGGGGGTGGA AGGGCCTTTA
  GCGGGCGGCG GGGCTCATTA GGCAGAGCGG GGTGCCGAGA GGTGCGCGCT GCCGGCCCCA
  GAGGCCGCCT TTGAGCCGTC                                            
  
  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
ss399316313	MGP_WTSI_17_86015913	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	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	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
rs229990696					SNP	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	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	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
ss399316313	MGP_WTSI_17_86015913	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:85924001 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9589	CpG island 9589	1114 bp distal
Cpgi9590	CpG island 9590	6 bp proximal
Cpgi9591	CpG island 9591	515 bp proximal
Cpgi9592	CpG island 9592	1161 bp proximal
Gm54532	predicted gene, 54532	1494 bp upstream
Gm55783	predicted gene, 55783	1838 bp downstream
Gm55784	predicted gene, 55784	1291 bp downstream
Gm55785	predicted gene, 55785	129 bp upstream
Six3	sine oculis-related homeobox 3	within coordinates
Six3os1	SIX homeobox 3, opposite strand 1	within coordinates
Tssr5219	transcription start site region 5219	1780 bp downstream
Tssr5220	transcription start site region 5220	1990 bp downstream
Tssr149707	transcription start site region 149707	1761 bp upstream
Tssr149708	transcription start site region 149708	1563 bp upstream
Tssr149709	transcription start site region 149709	1515 bp upstream
Tssr149710	transcription start site region 149710	1421 bp upstream
Tssr149711	transcription start site region 149711	1397 bp upstream
Tssr149712	transcription start site region 149712	1111 bp upstream
Tssr149713	transcription start site region 149713	1790 bp downstream
Tssr149714	transcription start site region 149714	1805 bp downstream
Tssr149715	transcription start site region 149715	1840 bp downstream
Tssr149716	transcription start site region 149716	1922 bp downstream
Tssr149717	transcription start site region 149717	1975 bp downstream
Tssr149718	transcription start site region 149718	1999 bp downstream