Variant report

Variant	rs6890083
Chromosome Location	chr5:178324937-178324938
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	chr5:178324334..178326418-chr5:178335750..178338330,2	K562	blood:
2	chr5:178306684..178308564-chr5:178323715..178325258,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000213328	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10039708	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11948175	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11948664	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11948690	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11949180	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11949181	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11949892	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11949941	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11950641	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11950746	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11952790	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11954382	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11955047	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11958804	0.88[AMR][1000 genomes]
rs11958887	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11958941	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11960942	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12186584	0.80[EUR][1000 genomes]
rs12187167	0.80[EUR][1000 genomes]
rs12553	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1566106	0.95[EUR][1000 genomes]
rs35609799	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35957383	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs56814168	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs56872885	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56932649	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56951084	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs57153194	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs57426447	0.95[EUR][1000 genomes]
rs58354049	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs58554591	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58672680	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs58679434	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs58941917	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs59242428	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs59736551	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs59829327	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs59849584	0.80[EUR][1000 genomes]
rs59994898	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs60178472	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs60277514	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs60417551	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs60601817	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs60813042	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61295075	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61310482	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61492890	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61744382	0.80[EUR][1000 genomes]
rs62395084	0.83[EUR][1000 genomes]
rs6600991	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6859174	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6861717	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6863160	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6863202	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6863603	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6865216	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6866591	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6870926	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6877663	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6878353	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6882396	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6883566	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6887256	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6894878	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6895371	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7706558	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7724141	0.84[EUR][1000 genomes]
rs7727497	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7729560	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7729717	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7731067	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[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	nsv883218	chr5:178219855-178349391	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178314400-178325000	Weak transcription	Fetal Brain Male	brain
2	chr5:178323600-178325400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr5:178323600-178325400	Weak transcription	Lung	lung
4	chr5:178323600-178325600	Weak transcription	Aorta	Aorta
5	chr5:178323600-178326000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr5:178323600-178327400	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr5:178323600-178328000	Weak transcription	Fetal Lung	lung
8	chr5:178323600-178328200	Weak transcription	Gastric	stomach
9	chr5:178323600-178328600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr5:178323600-178331200	Weak transcription	Pancreas	Pancrea
11	chr5:178323600-178332800	Weak transcription	Left Ventricle	heart
12	chr5:178323600-178335400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr5:178323800-178325400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr5:178323800-178325400	Weak transcription	HepG2	liver
15	chr5:178323800-178325600	Weak transcription	Fetal Stomach	stomach
16	chr5:178323800-178325600	Weak transcription	Ovary	ovary
17	chr5:178323800-178325800	Weak transcription	Fetal Muscle Leg	muscle
18	chr5:178323800-178328200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr5:178323800-178329000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr5:178323800-178329600	Weak transcription	Fetal Muscle Trunk	muscle
21	chr5:178323800-178329800	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr5:178323800-178331000	Weak transcription	Colon Smooth Muscle	Colon
23	chr5:178323800-178332800	Weak transcription	Placenta	Placenta
24	chr5:178323800-178332800	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr5:178323800-178333800	Weak transcription	Primary B cells from peripheral blood	blood
26	chr5:178323800-178336200	Weak transcription	Right Ventricle	heart
27	chr5:178323800-178336400	Weak transcription	Stomach Smooth Muscle	stomach
28	chr5:178324000-178327000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr5:178324000-178328000	Weak transcription	Brain Hippocampus Middle	brain
30	chr5:178324000-178328200	Weak transcription	Brain Cingulate Gyrus	brain
31	chr5:178324000-178328200	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr5:178324000-178328400	Weak transcription	Brain Substantia Nigra	brain
33	chr5:178324000-178332800	Weak transcription	Brain Angular Gyrus	brain
34	chr5:178324000-178332800	Weak transcription	Brain Anterior Caudate	brain
35	chr5:178324400-178326200	Weak transcription	Fetal Brain Female	brain
36	chr5:178324400-178327600	Weak transcription	Brain Germinal Matrix	brain
37	chr5:178324800-178325000	Enhancers	Primary T helper naive cells fromperipheralblood	blood

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