Variant report

Variant	rs73839788
Chromosome Location	chr4:88366501-88366502
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	chr4:88361602..88363140-chr4:88363791..88366603,2	MCF-7	breast:
2	chr4:88342378..88346157-chr4:88365314..88366974,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170502	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11936277	0.89[AFR][1000 genomes]
rs11936844	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11938995	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56074145	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56760389	1.00[AMR][1000 genomes]
rs60276052	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61129437	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73839650	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73839651	1.00[AMR][1000 genomes]
rs73839713	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73839715	1.00[AMR][1000 genomes]
rs73839716	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73839719	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73839777	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73839783	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002789	chr4:88239340-88606485	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1011882	chr4:88363959-88402477	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:88344400-88398600	Weak transcription	Gastric	stomach
2	chr4:88345200-88400000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr4:88345200-88416400	Weak transcription	Colonic Mucosa	Colon
4	chr4:88345400-88372400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr4:88345400-88378800	Weak transcription	A549	lung
6	chr4:88345800-88372200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr4:88346200-88370600	Weak transcription	Thymus	Thymus
8	chr4:88346200-88382600	Weak transcription	NHLF	lung
9	chr4:88346400-88369600	Weak transcription	Right Atrium	heart
10	chr4:88346400-88372200	Weak transcription	Aorta	Aorta
11	chr4:88346400-88379400	Weak transcription	Small Intestine	intestine
12	chr4:88346600-88371600	Weak transcription	Spleen	Spleen
13	chr4:88346600-88372200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr4:88346600-88410400	Weak transcription	Esophagus	oesophagus
15	chr4:88346800-88371400	Weak transcription	Lung	lung
16	chr4:88347200-88372000	Weak transcription	NHEK	skin
17	chr4:88349000-88372400	Weak transcription	HSMMtube	muscle
18	chr4:88349000-88375400	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr4:88349400-88381800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr4:88350600-88380600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr4:88351200-88379000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr4:88351400-88382400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr4:88351600-88414600	Weak transcription	Psoas Muscle	Psoas
24	chr4:88351800-88366600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr4:88352600-88387200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr4:88353400-88377000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr4:88354800-88381600	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr4:88356000-88377600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr4:88356200-88367400	Strong transcription	Primary T helper cells fromperipheralblood	blood
30	chr4:88356200-88367600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr4:88356200-88368000	Strong transcription	HUES48 Cell Line	embryonic stem cell
32	chr4:88356400-88376400	Strong transcription	Liver	Liver
33	chr4:88356400-88377200	Weak transcription	Fetal Brain Male	brain
34	chr4:88356600-88382000	Weak transcription	Brain Germinal Matrix	brain
35	chr4:88357000-88366800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr4:88357000-88367400	Strong transcription	Duodenum Mucosa	Duodenum
37	chr4:88357200-88366800	Strong transcription	Primary T helper cells PMA-I stimulated	--
38	chr4:88357400-88367200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr4:88357600-88372000	Weak transcription	Hela-S3	cervix
40	chr4:88357600-88380000	Weak transcription	Brain Angular Gyrus	brain
41	chr4:88357800-88367000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr4:88357800-88381600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr4:88358400-88370600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr4:88359200-88367400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr4:88359400-88368200	Strong transcription	Fetal Thymus	thymus
46	chr4:88359800-88382200	Weak transcription	Fetal Brain Female	brain
47	chr4:88360400-88381800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
48	chr4:88360600-88372000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr4:88360800-88367000	Weak transcription	Fetal Stomach	stomach
50	chr4:88360800-88373400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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