Variant report

Variant	rs1592050
Chromosome Location	chr10:93541969-93541970
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:93536771..93542984-chr10:93556419..93559593,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000228701	Chromatin interaction
ENSG00000107854	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10509634	0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10748566	0.94[ASN][1000 genomes]
rs10786012	0.85[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs10786014	1.00[CHB][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs10881951	0.88[ASN][1000 genomes]
rs10881958	0.94[ASN][1000 genomes]
rs10881960	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs10881966	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10881967	1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10881971	0.96[GIH][hapmap];0.82[TSI][hapmap]
rs11186660	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11186664	0.83[ASN][1000 genomes]
rs11186665	0.89[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs11186667	0.92[ASN][1000 genomes]
rs11186668	0.93[ASN][1000 genomes]
rs11186722	0.80[JPT][hapmap]
rs1341263	0.83[GIH][hapmap]
rs1418160	0.93[ASN][1000 genomes]
rs1418162	0.93[ASN][1000 genomes]
rs1539042	0.85[JPT][hapmap]
rs1772189	0.85[JPT][hapmap]
rs1856927	0.94[ASN][1000 genomes]
rs1857060	0.87[ASN][1000 genomes]
rs1935029	0.98[ASN][1000 genomes]
rs2050913	0.98[ASN][1000 genomes]
rs2066275	0.96[GIH][hapmap];0.82[TSI][hapmap]
rs2153654	0.93[ASN][1000 genomes]
rs2421692	0.91[ASN][1000 genomes]
rs2901505	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3758499	0.91[GIH][hapmap];0.82[TSI][hapmap]
rs3802650	0.85[JPT][hapmap]
rs4244929	0.87[ASN][1000 genomes]
rs4933219	0.90[ASN][1000 genomes]
rs61876144	0.89[ASN][1000 genomes]
rs7897499	0.96[ASN][1000 genomes]
rs7918686	0.91[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1592050	HHEX	cis	parietal	SCAN
rs1592050	TNKS2	cis	cerebellum	SCAN
rs1592050	TNKS2	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93538800-93542200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr10:93539000-93542600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr10:93539200-93542200	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr10:93539200-93542200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr10:93539200-93542200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr10:93539400-93542600	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr10:93539800-93547000	Weak transcription	Esophagus	oesophagus
8	chr10:93541000-93555800	Weak transcription	Primary B cells from cord blood	blood
9	chr10:93541600-93542800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr10:93541800-93543000	Enhancers	iPS-20b Cell Line	embryonic stem cell

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