Variant report

Variant	rs9838627
Chromosome Location	chr3:52336744-52336745
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:52336284-52340927	HepG2	liver:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:52336627..52339541-chr3:52378479..52380909,2	K562	blood:
2	chr3:52336392..52338122-chr3:52347740..52349816,2	K562	blood:
3	chr3:52335740..52338441-chr3:52339077..52343007,7	K562	blood:
4	chr3:52334853..52337240-chr3:52339091..52341115,3	K562	blood:
5	chr3:52334304..52337060-chr3:52343020..52346051,4	K562	blood:
6	chr3:52332207..52334010-chr3:52336293..52338721,2	K562	blood:

No data

Variant related genes	Relation type
GLYCTK-AS1	TF binding region
ENSG00000242797	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs28477207	1.00[AMR][1000 genomes]
rs9812629	1.00[AMR][1000 genomes]
rs9827239	1.00[AMR][1000 genomes]
rs9855479	0.90[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv519445	chr3:52004317-52367932	Bivalent/Poised TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	134 gene(s)	inside rSNPs	diseases
2	nsv470572	chr3:52123313-52350212	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	103 gene(s)	inside rSNPs	diseases
3	nsv834695	chr3:52199701-52400577	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	98 gene(s)	inside rSNPs	diseases
4	nsv876787	chr3:52236762-52367932	Genic enhancers Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	90 gene(s)	inside rSNPs	diseases
5	nsv876788	chr3:52247110-52367932	Enhancers Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	90 gene(s)	inside rSNPs	diseases
6	nsv876789	chr3:52247110-52575831	Flanking Active TSS Bivalent Enhancer Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
7	nsv984542	chr3:52285682-52516115	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	94 gene(s)	inside rSNPs	diseases
8	nsv834696	chr3:52317478-52479537	Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52323200-52341000	Weak transcription	Small Intestine	intestine
2	chr3:52325600-52340400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr3:52327200-52351600	Weak transcription	Aorta	Aorta
4	chr3:52327400-52338400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr3:52327400-52351600	Weak transcription	Brain Anterior Caudate	brain
6	chr3:52327600-52344600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr3:52328000-52337000	Weak transcription	Adipose Nuclei	Adipose
8	chr3:52328000-52347000	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr3:52328200-52340200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr3:52328200-52366000	Weak transcription	Brain Angular Gyrus	brain
11	chr3:52328600-52340000	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr3:52328800-52340200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr3:52328800-52367600	Weak transcription	Brain Substantia Nigra	brain
14	chr3:52329200-52351600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr3:52330200-52343400	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr3:52330200-52343400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr3:52330200-52345400	Weak transcription	Brain Cingulate Gyrus	brain
18	chr3:52330400-52378600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr3:52331000-52337600	Weak transcription	Primary T cells from cord blood	blood
20	chr3:52331000-52343200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr3:52331200-52342800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr3:52333000-52340800	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr3:52333000-52341200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr3:52333000-52351600	Weak transcription	Thymus	Thymus
25	chr3:52333400-52339200	Weak transcription	Colonic Mucosa	Colon
26	chr3:52334000-52340800	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr3:52334000-52351400	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr3:52334200-52338200	Weak transcription	Primary B cells from cord blood	blood
29	chr3:52334200-52347400	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr3:52334200-52349600	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr3:52334400-52340800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr3:52334400-52344000	Weak transcription	Brain Hippocampus Middle	brain
33	chr3:52334400-52347200	Weak transcription	Esophagus	oesophagus
34	chr3:52334600-52338000	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr3:52334600-52338600	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr3:52334600-52339200	Weak transcription	Gastric	stomach
37	chr3:52334600-52339800	Weak transcription	Spleen	Spleen
38	chr3:52334600-52341200	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr3:52334600-52341200	Weak transcription	Primary B cells from peripheral blood	blood
40	chr3:52334600-52341400	Weak transcription	Primary hematopoietic stem cells	blood
41	chr3:52334600-52342200	Weak transcription	Liver	Liver
42	chr3:52334600-52348000	Weak transcription	Stomach Smooth Muscle	stomach
43	chr3:52335000-52338000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr3:52335000-52341000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr3:52335000-52347600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr3:52335200-52337200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr3:52335200-52337600	Weak transcription	Fetal Stomach	stomach
48	chr3:52335200-52338400	Weak transcription	HepG2	liver
49	chr3:52335200-52338800	Weak transcription	Duodenum Mucosa	Duodenum
50	chr3:52335200-52339000	Weak transcription	Right Ventricle	heart

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