Variant report

Variant	rs35721330
Chromosome Location	chr19:52891892-52891893
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:52875265..52876916-chr19:52889763..52892567,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12976033	0.94[EUR][1000 genomes]
rs12976751	0.90[EUR][1000 genomes]
rs12978149	0.90[EUR][1000 genomes]
rs12983120	0.86[EUR][1000 genomes]
rs34830840	0.92[EUR][1000 genomes]
rs35280531	0.83[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs35752205	0.88[EUR][1000 genomes]
rs35953943	0.96[EUR][1000 genomes]
rs36009530	0.96[EUR][1000 genomes]
rs56374938	0.99[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73934445	0.98[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833873	chr19:52788939-52937281	Weak transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1066537	chr19:52794424-53044977	Active TSS ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS 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	24 gene(s)	inside rSNPs	diseases
3	nsv544060	chr19:52794424-53044977	ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	esv3401193	chr19:52818960-52909749	ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv912300	chr19:52832830-52928039	Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv912301	chr19:52835210-52914233	ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
7	nsv912302	chr19:52859828-52928039	Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv2536	chr19:52869457-52902064	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv912303	chr19:52874140-52928039	ZNF genes & repeats Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
10	esv3372061	chr19:52877189-52902218	Weak transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv521079	chr19:52886137-52917626	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
12	esv3511780	chr19:52887690-52892388	ZNF genes & repeats Strong transcription Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv511613	chr19:52888071-52895166	Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
14	esv3511776	chr19:52888090-52892388	ZNF genes & repeats Strong transcription Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	esv3394429	chr19:52888140-52892538	ZNF genes & repeats Strong transcription Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
16	esv3511778	chr19:52888454-52893799	ZNF genes & repeats Weak transcription Strong transcription	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
17	nsv828615	chr19:52888767-52936555	ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
18	nsv580025	chr19:52890176-52895885	ZNF genes & repeats Weak transcription Strong transcription	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:52876200-52893400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
2	chr19:52876200-52893800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr19:52876200-52894000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr19:52876200-52894000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr19:52876200-52894200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr19:52876200-52895000	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
7	chr19:52877400-52893800	ZNF genes & repeats	Duodenum Mucosa	Duodenum
8	chr19:52877800-52894200	ZNF genes & repeats	Adipose Nuclei	Adipose
9	chr19:52880400-52893800	ZNF genes & repeats	Fetal Muscle Trunk	muscle
10	chr19:52886000-52893400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr19:52888000-52897600	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr19:52888600-52892800	Weak transcription	Right Ventricle	heart
13	chr19:52888600-52898600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr19:52888800-52894600	ZNF genes & repeats	Fetal Stomach	stomach
15	chr19:52889000-52892600	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr19:52889000-52892800	Weak transcription	HSMM	muscle
17	chr19:52889000-52897600	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr19:52889000-52898200	Weak transcription	Brain Angular Gyrus	brain
19	chr19:52889000-52898200	Weak transcription	Brain Anterior Caudate	brain
20	chr19:52889200-52900800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr19:52889400-52892600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr19:52889800-52892000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr19:52889800-52892600	Weak transcription	Pancreas	Pancrea
24	chr19:52889800-52898600	Weak transcription	Fetal Heart	heart
25	chr19:52890000-52892000	Strong transcription	Ovary	ovary
26	chr19:52890600-52892000	Weak transcription	Stomach Smooth Muscle	stomach
27	chr19:52890600-52892400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr19:52890600-52897600	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr19:52890600-52898600	Weak transcription	NHDF-Ad	bronchial
30	chr19:52890800-52897600	Weak transcription	Brain Hippocampus Middle	brain
31	chr19:52891200-52893200	ZNF genes & repeats	Placenta	Placenta
32	chr19:52891200-52894000	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
33	chr19:52891200-52896600	ZNF genes & repeats	Fetal Intestine Small	intestine
34	chr19:52891200-52899600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
35	chr19:52891400-52892200	Strong transcription	HSMMtube	muscle
36	chr19:52891400-52893200	ZNF genes & repeats	Thymus	Thymus
37	chr19:52891400-52895200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
38	chr19:52891400-52895800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr19:52891400-52896800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr19:52891600-52892800	ZNF genes & repeats	Colon Smooth Muscle	Colon
41	chr19:52891600-52893800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr19:52891600-52893800	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr19:52891600-52893800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr19:52891600-52893800	ZNF genes & repeats	Fetal Lung	lung
45	chr19:52891600-52893800	ZNF genes & repeats	Fetal Muscle Leg	muscle
46	chr19:52891600-52894000	ZNF genes & repeats	Left Ventricle	heart
47	chr19:52891600-52894600	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr19:52891600-52899800	ZNF genes & repeats	Fetal Brain Female	brain
49	chr19:52891800-52892000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
50	chr19:52891800-52892000	ZNF genes & repeats	NH-A	brain

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