Variant report

Variant	rs7783141
Chromosome Location	chr7:27799612-27799613
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:27779192..27781381-chr7:27799136..27801395,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000229893	Chromatin interaction
ENSG00000106052	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10486560	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11981473	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11981639	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11982051	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17155661	1.00[AMR][1000 genomes]
rs17155671	1.00[AMR][1000 genomes]
rs17155769	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17155774	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17155787	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17155813	0.87[AMR][1000 genomes]
rs17155815	0.87[AMR][1000 genomes]
rs17155818	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4299908	1.00[AMR][1000 genomes]
rs57293935	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57355732	0.89[AMR][1000 genomes]
rs59134341	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60524058	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60811898	1.00[AMR][1000 genomes]
rs61226834	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6462046	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6942560	1.00[AMR][1000 genomes]
rs6952476	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6958438	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6958646	1.00[AMR][1000 genomes]
rs6963125	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6969000	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs73293835	1.00[AMR][1000 genomes]
rs73293838	1.00[AMR][1000 genomes]
rs73293842	1.00[AMR][1000 genomes]
rs73293856	1.00[AMR][1000 genomes]
rs73293862	1.00[AMR][1000 genomes]
rs73293868	1.00[AMR][1000 genomes]
rs73293882	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73293893	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73295504	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73295519	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs73295543	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73295545	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73295567	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73297523	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73297535	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7783426	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7803672	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949025	chr7:27578167-28075172	Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1028469	chr7:27767795-27939667	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	esv2758109	chr7:27793616-27972869	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	esv2759520	chr7:27793616-27972869	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:27780800-27805600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr7:27780800-27810200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr7:27780800-27815200	Weak transcription	Gastric	stomach
4	chr7:27781000-27800200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr7:27781000-27861800	Weak transcription	Aorta	Aorta
6	chr7:27781400-27803200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr7:27781400-27812800	Weak transcription	Brain Germinal Matrix	brain
8	chr7:27784800-27801000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr7:27784800-27834000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr7:27784800-27878400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr7:27785000-27805600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr7:27785000-27806200	Weak transcription	Spleen	Spleen
13	chr7:27785000-27825000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr7:27785200-27809800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr7:27787000-27804200	Weak transcription	Fetal Intestine Small	intestine
16	chr7:27787600-27805600	Weak transcription	Pancreas	Pancrea
17	chr7:27787600-27825000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr7:27787800-27826600	Weak transcription	Small Intestine	intestine
19	chr7:27788200-27800400	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr7:27788200-27801600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr7:27788200-27801800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr7:27788200-27801800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr7:27788200-27802200	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr7:27788400-27801800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr7:27789000-27800800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr7:27789000-27801200	Strong transcription	Primary T helper cells PMA-I stimulated	--
27	chr7:27789600-27811000	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr7:27789800-27805400	Weak transcription	Esophagus	oesophagus
29	chr7:27790200-27815200	Weak transcription	Psoas Muscle	Psoas
30	chr7:27790600-27801000	Weak transcription	Fetal Brain Female	brain
31	chr7:27790600-27825000	Weak transcription	NHLF	lung
32	chr7:27790600-27835000	Weak transcription	Brain Cingulate Gyrus	brain
33	chr7:27790600-27857400	Weak transcription	Colonic Mucosa	Colon
34	chr7:27790800-27800600	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr7:27791000-27805400	Weak transcription	Stomach Smooth Muscle	stomach
36	chr7:27791600-27810000	Weak transcription	Colon Smooth Muscle	Colon
37	chr7:27791800-27805400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr7:27792000-27801000	Weak transcription	Fetal Brain Male	brain
39	chr7:27792000-27802000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr7:27792200-27800400	Weak transcription	Fetal Muscle Trunk	muscle
41	chr7:27792200-27801000	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr7:27792200-27803200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr7:27792200-27805400	Weak transcription	Left Ventricle	heart
44	chr7:27792200-27805400	Weak transcription	Thymus	Thymus
45	chr7:27792200-27805800	Weak transcription	Right Ventricle	heart
46	chr7:27792200-27810200	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr7:27792200-27810200	Weak transcription	HMEC	breast
48	chr7:27792200-27825000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr7:27792200-27825000	Weak transcription	Brain Hippocampus Middle	brain
50	chr7:27792400-27810200	Weak transcription	Hela-S3	cervix

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