Variant report

Variant	rs17009886
Chromosome Location	chr10:50489950-50489951
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	chr10:50489012..50491295-chr10:50497060..50500818,3	MCF-7	breast:
2	chr10:50486341..50490771-chr10:50506621..50509416,6	K562	blood:

Variant related genes	Relation type
ENSG00000236208	Chromatin interaction
ENSG00000177354	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10732630	0.96[EUR][1000 genomes]
rs10732631	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10735220	0.89[EUR][1000 genomes]
rs10735221	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10745257	0.93[EUR][1000 genomes]
rs10776550	0.93[EUR][1000 genomes]
rs10776551	0.92[EUR][1000 genomes]
rs10776553	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10776555	0.88[EUR][1000 genomes]
rs10857454	0.91[EUR][1000 genomes]
rs10857455	0.93[EUR][1000 genomes]
rs10857456	0.93[EUR][1000 genomes]
rs10857458	0.96[EUR][1000 genomes]
rs10857460	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11101075	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11101076	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11101085	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11101086	0.86[EUR][1000 genomes]
rs1122560	1.00[ASN][1000 genomes]
rs12254955	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17009669	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17009755	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17009880	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2377975	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2377976	0.85[EUR][1000 genomes]
rs2377977	0.96[EUR][1000 genomes]
rs2377978	0.96[EUR][1000 genomes]
rs2377979	0.86[EUR][1000 genomes]
rs2889806	0.80[ASN][1000 genomes]
rs3996894	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3996895	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4297382	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4310533	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4478905	0.89[EUR][1000 genomes]
rs4483512	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4582889	0.93[EUR][1000 genomes]
rs4600130	0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4838376	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4838377	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4838479	0.96[EUR][1000 genomes]
rs4838480	0.96[EUR][1000 genomes]
rs4838481	0.96[EUR][1000 genomes]
rs4838482	0.96[EUR][1000 genomes]
rs4838483	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4838485	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4838486	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs55892993	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs56165245	0.86[EUR][1000 genomes]
rs56203859	0.86[EUR][1000 genomes]
rs56387457	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61519033	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6537519	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6537520	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7068959	0.93[EUR][1000 genomes]
rs7082585	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7085410	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7098191	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs73308728	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73308730	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73308731	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7905866	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7911371	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7911514	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7913006	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7913851	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895375	chr10:50306386-51028871	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv534410	chr10:50317458-50826916	Weak transcription Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv895376	chr10:50480164-50557211	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50485800-50495000	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr10:50486000-50490400	Enhancers	Monocytes-CD14+_RO01746	blood
3	chr10:50487200-50490800	Enhancers	Fetal Heart	heart
4	chr10:50487400-50490400	Weak transcription	K562	blood
5	chr10:50488200-50490400	Weak transcription	HSMMtube	muscle
6	chr10:50488200-50490600	Weak transcription	HSMM	muscle
7	chr10:50488200-50490800	Weak transcription	Right Atrium	heart
8	chr10:50488200-50492400	Weak transcription	Lung	lung
9	chr10:50488400-50490600	Weak transcription	Right Ventricle	heart
10	chr10:50488600-50491200	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr10:50488600-50494600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr10:50488800-50490600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr10:50489000-50492800	Enhancers	Skeletal Muscle Male	skeletal muscle
14	chr10:50489200-50490600	Enhancers	Skeletal Muscle Female	skeletal muscle
15	chr10:50489400-50490000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr10:50489400-50492000	Enhancers	Fetal Muscle Trunk	muscle
17	chr10:50489600-50491800	Enhancers	Left Ventricle	heart
18	chr10:50489600-50491800	Enhancers	Psoas Muscle	Psoas
19	chr10:50489600-50492800	Enhancers	Fetal Muscle Leg	muscle

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