Variant report

Variant	rs1970506
Chromosome Location	chr10:93428286-93428287
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:93428056..93430246-chr10:93430391..93432462,3	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10732773	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs10748563	0.89[EUR][1000 genomes]
rs10786008	0.96[EUR][1000 genomes]
rs10881929	0.90[EUR][1000 genomes]
rs10881934	0.94[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.93[EUR][1000 genomes]
rs10881935	0.95[CEU][hapmap];0.96[EUR][1000 genomes]
rs10881938	0.89[EUR][1000 genomes]
rs10881939	0.96[EUR][1000 genomes]
rs10881940	0.95[EUR][1000 genomes]
rs10881941	0.92[EUR][1000 genomes]
rs10881942	0.95[EUR][1000 genomes]
rs10881943	0.95[EUR][1000 genomes]
rs10881945	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs11186640	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1539246	0.90[EUR][1000 genomes]
rs1891271	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs1891272	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs1891274	0.87[EUR][1000 genomes]
rs2000177	0.96[EUR][1000 genomes]
rs2000178	0.96[EUR][1000 genomes]
rs2027486	0.96[EUR][1000 genomes]
rs2421621	0.96[EUR][1000 genomes]
rs2421623	0.96[EUR][1000 genomes]
rs2421624	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2421625	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2421626	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2421627	0.90[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2421628	0.99[EUR][1000 genomes]
rs2421629	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs4439432	0.93[EUR][1000 genomes]
rs4933216	0.81[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs4933677	0.90[CEU][hapmap];0.87[EUR][1000 genomes]
rs4933681	0.96[EUR][1000 genomes]
rs4933682	0.92[EUR][1000 genomes]
rs4933683	0.96[EUR][1000 genomes]
rs4933684	0.92[EUR][1000 genomes]
rs4933685	0.89[EUR][1000 genomes]
rs4933687	0.96[EUR][1000 genomes]
rs4933690	0.81[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs4933691	0.81[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs4933692	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs6583782	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs7071844	0.96[EUR][1000 genomes]
rs7077656	0.87[EUR][1000 genomes]
rs7084386	0.91[EUR][1000 genomes]
rs7087959	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs7088831	0.96[EUR][1000 genomes]
rs7897524	0.96[EUR][1000 genomes]
rs7900799	0.92[EUR][1000 genomes]
rs7900863	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs7908980	0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948135	chr10:93423027-93430220	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs1970506	TNKS2-AS1	cis	Muscle Skeletal	GTEx
rs1970506	TNKS2-AS1	cis	Skin Sun Exposed Lower leg	GTEx
rs1970506	TNKS2-AS1	cis	Heart Left Ventricle	GTEx
rs1970506	TNKS2-AS1	cis	Esophagus Muscularis	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93419200-93431400	Weak transcription	Psoas Muscle	Psoas
2	chr10:93424800-93449800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr10:93425800-93432000	Weak transcription	Osteobl	bone
4	chr10:93427000-93443400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr10:93427600-93431400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr10:93427600-93448800	Weak transcription	Liver	Liver
7	chr10:93428000-93428600	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr10:93428200-93428600	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr10:93428200-93429200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr10:93428200-93431200	Enhancers	iPS-15b Cell Line	embryonic stem cell

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