Variant report

Variant	rs1034450
Chromosome Location	chr6:35189690-35189691
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35177824..35181731-chr6:35185438..35190079,5	K562	blood:
2	chr6:35188260..35190147-chr6:35205667..35207207,2	K562	blood:
3	chr6:35182167..35187066-chr6:35187567..35191599,8	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TCP11-2	chr6:35188147-35192407	ENSG00000272374.1

Variant related genes	Relation type
ENSG00000146197	Chromatin interaction

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10428744	1.00[ASN][1000 genomes]
rs11962521	1.00[ASN][1000 genomes]
rs11962524	1.00[ASN][1000 genomes]
rs12110520	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12110664	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12111424	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16868695	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs16868699	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs16872293	1.00[ASN][1000 genomes]
rs16874062	0.81[AMR][1000 genomes]
rs16874216	1.00[ASN][1000 genomes]
rs16874262	0.81[AMR][1000 genomes]
rs2004	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2187903	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2228265	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28627111	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2894400	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34278260	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35455943	0.88[EUR][1000 genomes]
rs41270046	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41270062	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45482297	1.00[ASN][1000 genomes]
rs56809926	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57229653	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57468283	1.00[ASN][1000 genomes]
rs57794912	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57976333	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58796597	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58850273	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59895076	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60086237	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60113507	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60569490	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61592141	1.00[ASN][1000 genomes]
rs61734578	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457817	1.00[ASN][1000 genomes]
rs6900879	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6901580	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6904477	1.00[ASN][1000 genomes]
rs6905732	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906117	0.81[AMR][1000 genomes]
rs6911817	1.00[ASN][1000 genomes]
rs6923025	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6934083	1.00[ASN][1000 genomes]
rs6938138	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6939017	1.00[ASN][1000 genomes]
rs73403830	1.00[ASN][1000 genomes]
rs73403834	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73403837	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73403843	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73403847	1.00[ASN][1000 genomes]
rs73403887	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405709	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405725	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405759	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405765	1.00[ASN][1000 genomes]
rs73405768	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405774	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405795	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405799	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73407610	1.00[ASN][1000 genomes]
rs73407613	1.00[ASN][1000 genomes]
rs73407619	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73407641	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73407650	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73407675	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409710	1.00[ASN][1000 genomes]
rs73409758	1.00[ASN][1000 genomes]
rs73409765	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409769	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409774	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409778	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409793	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73411706	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73411720	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73411726	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73411781	0.81[EUR][1000 genomes]
rs73411797	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73746425	1.00[ASN][1000 genomes]
rs743965	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7773319	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs820102	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462062	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462064	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462066	0.81[AMR][1000 genomes]
rs9469960	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469965	0.81[AMR][1000 genomes]
rs9469966	0.81[AMR][1000 genomes]
rs9469967	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469969	0.87[AMR][1000 genomes]
rs9469977	0.81[AMR][1000 genomes]
rs9469984	0.81[AMR][1000 genomes]
rs9658127	1.00[ASN][1000 genomes]
rs9658131	1.00[ASN][1000 genomes]
rs9942465	0.81[EUR][1000 genomes];1.00[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	esv3428128	chr6:35150524-35225843	Bivalent Enhancer Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv2758047	chr6:35168116-35291002	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	esv2759419	chr6:35168116-35291002	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35182400-35209000	Weak transcription	A549	lung
2	chr6:35182600-35198600	Weak transcription	Gastric	stomach
3	chr6:35183200-35198800	Weak transcription	Ovary	ovary
4	chr6:35184800-35205600	Weak transcription	Fetal Brain Female	brain
5	chr6:35185400-35198800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr6:35185600-35194200	Enhancers	Fetal Heart	heart
7	chr6:35185800-35198400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr6:35186200-35202800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr6:35186400-35198000	Weak transcription	Rectal Smooth Muscle	rectum
10	chr6:35186400-35212000	Weak transcription	NHDF-Ad	bronchial
11	chr6:35186600-35193200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:35186600-35198200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr6:35186600-35204600	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr6:35186600-35205400	Weak transcription	Fetal Muscle Trunk	muscle
15	chr6:35186800-35212000	Weak transcription	Dnd41	blood
16	chr6:35187000-35196400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr6:35187000-35197600	Weak transcription	Stomach Smooth Muscle	stomach
18	chr6:35187200-35189800	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr6:35187400-35198400	Weak transcription	Brain Hippocampus Middle	brain
20	chr6:35187600-35198400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr6:35187800-35192600	Weak transcription	Brain Anterior Caudate	brain
22	chr6:35188000-35190200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:35188000-35191400	Weak transcription	Fetal Stomach	stomach
24	chr6:35188000-35195200	Weak transcription	Lung	lung
25	chr6:35188000-35198400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr6:35188000-35198600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr6:35188000-35199400	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr6:35188200-35190000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr6:35188200-35200400	Genic enhancers	Osteobl	bone
30	chr6:35188200-35205800	Weak transcription	Fetal Kidney	kidney
31	chr6:35188200-35206400	Weak transcription	NH-A	brain
32	chr6:35188400-35197200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr6:35188400-35199600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr6:35188600-35195400	Weak transcription	Aorta	Aorta
35	chr6:35188800-35191800	Enhancers	Left Ventricle	heart
36	chr6:35188800-35194600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:35188800-35195200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr6:35189000-35190400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr6:35189000-35195200	Weak transcription	Fetal Intestine Small	intestine
40	chr6:35189200-35200000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr6:35189600-35190600	Enhancers	Right Ventricle	heart
42	chr6:35189600-35191200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:35189600-35205800	Weak transcription	Brain Germinal Matrix	brain

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