Variant report

Variant	rs913792
Chromosome Location	chr20:25520043-25520044
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:25476419..25480130-chr20:25519164..25522649,4	MCF-7	breast:
2	chr20:25518724..25523016-chr20:25601749..25604904,3	MCF-7	breast:
3	chr20:25519449..25520233-chr20:25534260..25534819,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170191	Chromatin interaction
ENSG00000101004	Chromatin interaction
ENSG00000213742	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs2482904	1.00[AFR][1000 genomes]
rs2482905	1.00[AFR][1000 genomes]
rs2482914	1.00[AFR][1000 genomes]
rs2482944	1.00[AFR][1000 genomes]
rs2500398	1.00[AFR][1000 genomes]
rs2500415	1.00[AFR][1000 genomes]
rs2500421	1.00[AFR][1000 genomes]
rs2500422	1.00[AFR][1000 genomes]
rs2500427	1.00[AFR][1000 genomes]
rs381497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs407925	1.00[AFR][1000 genomes]
rs4813573	1.00[AMR][1000 genomes]
rs4815430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs496133	1.00[AFR][1000 genomes]
rs574221	1.00[AFR][1000 genomes]
rs6050676	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6050696	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6050856	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6050866	1.00[AMR][1000 genomes]
rs913794	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067379	chr20:25355484-25593240	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv1060591	chr20:25388781-25628750	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv544223	chr20:25388781-25628750	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1067441	chr20:25397566-25615439	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv912828	chr20:25433015-25595175	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1062452	chr20:25438025-25590278	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv1066066	chr20:25439367-25588016	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv544224	chr20:25439367-25588016	Genic enhancers ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv912829	chr20:25444242-25595175	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv912830	chr20:25449945-25595175	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv912831	chr20:25449945-25595868	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
12	nsv994976	chr20:25466406-25593286	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	nsv534623	chr20:25466406-25593296	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
14	nsv1062765	chr20:25466482-25556751	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
15	nsv544225	chr20:25466482-25556751	Genic enhancers Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
16	esv2762069	chr20:25506582-25619528	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25498200-25532200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr20:25505400-25521000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr20:25511200-25520200	Weak transcription	Fetal Brain Male	brain
4	chr20:25513800-25520400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr20:25513800-25521200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr20:25514200-25521000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr20:25514400-25520800	Weak transcription	Fetal Kidney	kidney
8	chr20:25514400-25522400	Weak transcription	NH-A	brain
9	chr20:25514800-25520400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr20:25515000-25520200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr20:25515000-25520200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr20:25515400-25520600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr20:25515600-25520200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr20:25516000-25520200	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr20:25517800-25554600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr20:25518200-25520800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr20:25518600-25520200	Enhancers	Right Ventricle	heart
18	chr20:25518800-25521000	Weak transcription	A549	lung
19	chr20:25518800-25524400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr20:25518800-25530200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr20:25519000-25521800	Weak transcription	Thymus	Thymus
22	chr20:25519000-25522600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr20:25519200-25520400	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr20:25519200-25520400	Weak transcription	Fetal Intestine Small	intestine
25	chr20:25519200-25520400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
26	chr20:25519200-25520400	Enhancers	Spleen	Spleen
27	chr20:25519200-25520600	Enhancers	Lung	lung
28	chr20:25519200-25520600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
29	chr20:25519200-25520600	Flanking Active TSS	Stomach Smooth Muscle	stomach
30	chr20:25519200-25521400	Enhancers	Pancreas	Pancrea
31	chr20:25519400-25520200	Flanking Active TSS	Brain Anterior Caudate	brain
32	chr20:25519400-25520400	Enhancers	Fetal Muscle Leg	muscle
33	chr20:25519400-25520600	Enhancers	Gastric	stomach
34	chr20:25519400-25521400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr20:25519400-25521400	Enhancers	Fetal Heart	heart
36	chr20:25519400-25524000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr20:25519600-25520200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr20:25519600-25520200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr20:25519600-25520200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr20:25519600-25520200	Flanking Active TSS	Brain Cingulate Gyrus	brain
41	chr20:25519600-25520400	Flanking Active TSS	Brain Angular Gyrus	brain
42	chr20:25519600-25520400	Weak transcription	Brain Germinal Matrix	brain
43	chr20:25519600-25520400	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
44	chr20:25519600-25520400	Flanking Active TSS	Brain Substantia Nigra	brain
45	chr20:25519600-25520400	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
46	chr20:25519600-25520400	Enhancers	Fetal Lung	lung
47	chr20:25519600-25520600	Flanking Active TSS	HepG2	liver
48	chr20:25519600-25520800	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
49	chr20:25519600-25521200	Enhancers	Placenta	Placenta
50	chr20:25519600-25521400	Enhancers	Fetal Muscle Trunk	muscle

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