Variant report

Variant	rs73835773
Chromosome Location	chr3:52322844-52322845
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:13)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:13 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAX	chr3:52322696-52324934	HepG2	liver:	n/a	chr3:52323578-52323587
2	POLR2A	chr3:52322647-52323203	GM12878	blood:	n/a	n/a
3	ELF1	chr3:52322525-52322851	K562	blood:	n/a	n/a
4	RCOR1	chr3:52322837-52322948	K562	blood:	n/a	n/a
5	POLR2A	chr3:52320635-52323013	GM12878	blood:	n/a	n/a
6	POLR2A	chr3:52320120-52326729	HepG2	liver:	n/a	n/a
7	POLR2A	chr3:52322664-52322989	K562	blood:	n/a	n/a
8	POLR2A	chr3:52322597-52323143	GM12892	blood:	n/a	n/a
9	POLR2A	chr3:52322616-52323121	GM12878	blood:	n/a	n/a
10	POLR2A	chr3:52322606-52323038	K562	blood:	n/a	n/a
11	POLR2A	chr3:52322583-52323680	GM12878	blood:	n/a	n/a
12	SRF	chr3:52322831-52323099	HepG2	liver:	n/a	chr3:52322985-52323003
13	POLR2A	chr3:52320768-52322860	GM12891	blood:	n/a	n/a

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:52272181..52276088-chr3:52318615..52323958,11	MCF-7	breast:
2	chr3:52321086..52323733-chr3:52324166..52327461,5	MCF-7	breast:
3	chr3:52321755..52323526-chr3:52405745..52408434,2	K562	blood:
4	chr3:52271022..52275105-chr3:52320320..52325575,6	K562	blood:
5	chr3:52310660..52314319-chr3:52321399..52324807,9	K562	blood:
6	chr3:52321744..52323842-chr3:52332822..52334732,2	MCF-7	breast:
7	chr3:52321768..52324071-chr3:52488633..52490328,2	K562	blood:
8	chr3:52187595..52189186-chr3:52321663..52323180,2	MCF-7	breast:
9	chr3:52278070..52281652-chr3:52320199..52323338,4	MCF-7	breast:
10	chr3:52311051..52315983-chr3:52317623..52323290,10	MCF-7	breast:
11	chr3:52271015..52274727-chr3:52321912..52324165,4	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-WDR82-1	chr3:52322596-52323292	ENSG00000242797.1

No data

Variant related genes	Relation type
WDR82	TF binding region
GLYCTK	TF binding region
ENSG00000239732	Chromatin interaction
ENSG00000247596	Chromatin interaction
ENSG00000164087	Chromatin interaction
ENSG00000242797	Chromatin interaction
ENSG00000239557	Chromatin interaction
ENSG00000010322	Chromatin interaction
ENSG00000168237	Chromatin interaction
ENSG00000243224	Chromatin interaction
ENSG00000164088	Chromatin interaction
ENSG00000164091	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs55931436	1.00[AMR][1000 genomes]
rs56263308	1.00[AMR][1000 genomes]
rs56332579	1.00[AMR][1000 genomes]
rs57265663	1.00[AMR][1000 genomes]
rs60063053	1.00[AMR][1000 genomes]
rs61589587	1.00[AMR][1000 genomes]
rs61734625	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61738522	1.00[AMR][1000 genomes]
rs6765965	1.00[AMR][1000 genomes]
rs6778451	1.00[AMR][1000 genomes]
rs6789826	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73835708	1.00[AMR][1000 genomes]
rs73835711	1.00[AMR][1000 genomes]
rs73835763	1.00[AMR][1000 genomes]
rs73835764	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73835767	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73835769	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73835771	0.81[AFR][1000 genomes]
rs73835772	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73835774	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837050	1.00[AMR][1000 genomes]
rs73837051	1.00[AMR][1000 genomes]
rs73837056	1.00[AMR][1000 genomes]
rs73837058	1.00[AMR][1000 genomes]
rs73837574	1.00[AMR][1000 genomes]
rs73838346	1.00[AMR][1000 genomes]
rs73838349	1.00[AMR][1000 genomes]
rs7644241	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 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	nsv834694	chr3:52178983-52335821	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	102 gene(s)	inside rSNPs	diseases
4	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
5	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
6	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
7	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
8	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
9	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:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52321000-52323000	Active TSS	H9 Cell Line	embryonic stem cell
2	chr3:52321200-52323000	Active TSS	HUES64 Cell Line	embryonic stem cell
3	chr3:52321400-52323000	Active TSS	Fetal Brain Male	brain
4	chr3:52321400-52323400	Active TSS	Rectal Smooth Muscle	rectum
5	chr3:52322200-52323200	Flanking Active TSS	Adipose Nuclei	Adipose
6	chr3:52322200-52323800	Flanking Active TSS	Liver	Liver
7	chr3:52322400-52323000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
8	chr3:52322400-52323000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
9	chr3:52322400-52323000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
10	chr3:52322400-52323000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr3:52322400-52323000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
12	chr3:52322400-52323000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
13	chr3:52322400-52323200	Flanking Active TSS	Primary B cells from cord blood	blood
14	chr3:52322400-52323200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:52322400-52323200	Flanking Active TSS	Dnd41	blood
16	chr3:52322400-52323400	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr3:52322400-52323800	Enhancers	Spleen	Spleen
18	chr3:52322400-52324400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr3:52322400-52324600	Enhancers	Sigmoid Colon	Sigmoid Colon
20	chr3:52322400-52325200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
21	chr3:52322600-52323000	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr3:52322600-52323000	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr3:52322600-52323000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr3:52322600-52323000	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr3:52322600-52323000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
26	chr3:52322600-52323000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
27	chr3:52322600-52323000	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr3:52322600-52323000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
29	chr3:52322600-52323000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr3:52322600-52323000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr3:52322600-52323000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr3:52322600-52323000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr3:52322600-52323000	Flanking Active TSS	Brain Anterior Caudate	brain
34	chr3:52322600-52323000	Flanking Active TSS	Brain Cingulate Gyrus	brain
35	chr3:52322600-52323000	Flanking Active TSS	Brain Hippocampus Middle	brain
36	chr3:52322600-52323000	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
37	chr3:52322600-52323000	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
38	chr3:52322600-52323000	Enhancers	Fetal Muscle Trunk	muscle
39	chr3:52322600-52323000	Enhancers	Fetal Stomach	stomach
40	chr3:52322600-52323000	Enhancers	Left Ventricle	heart
41	chr3:52322600-52323000	Enhancers	Psoas Muscle	Psoas
42	chr3:52322600-52323000	Flanking Active TSS	Stomach Mucosa	stomach
43	chr3:52322600-52323000	Flanking Active TSS	Stomach Smooth Muscle	stomach
44	chr3:52322600-52323000	Flanking Active TSS	HMEC	breast
45	chr3:52322600-52323000	Flanking Active TSS	HSMMtube	muscle
46	chr3:52322600-52323000	Flanking Active TSS	NH-A	brain
47	chr3:52322600-52323000	Flanking Active TSS	Osteobl	bone
48	chr3:52322600-52323200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr3:52322600-52323200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
50	chr3:52322600-52323200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--

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