Variant report

Variant	rs59929172
Chromosome Location	chr19:53495643-53495644
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	chr19:53465058..53468377-chr19:53495533..53497921,4	K562	blood:

Variant related genes	Relation type
ENSG00000221874	Chromatin interaction
ENSG00000180257	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10426833	0.87[ASN][1000 genomes]
rs11880927	0.82[ASN][1000 genomes]
rs11881425	0.87[ASN][1000 genomes]
rs12463150	0.89[ASN][1000 genomes]
rs12610330	0.81[ASN][1000 genomes]
rs12610677	0.82[ASN][1000 genomes]
rs1612464	0.83[ASN][1000 genomes]
rs1650936	0.81[ASN][1000 genomes]
rs1650937	0.81[ASN][1000 genomes]
rs1650938	0.82[ASN][1000 genomes]
rs1650940	0.84[ASN][1000 genomes]
rs1650941	0.84[ASN][1000 genomes]
rs1650944	0.84[ASN][1000 genomes]
rs1650947	0.83[ASN][1000 genomes]
rs1650948	0.81[ASN][1000 genomes]
rs1650949	0.86[ASN][1000 genomes]
rs1661907	0.82[ASN][1000 genomes]
rs1661908	0.87[ASN][1000 genomes]
rs1661911	0.84[ASN][1000 genomes]
rs1661912	0.84[ASN][1000 genomes]
rs1661917	0.84[ASN][1000 genomes]
rs1661918	0.87[ASN][1000 genomes]
rs1661947	0.81[ASN][1000 genomes]
rs16984291	0.84[ASN][1000 genomes]
rs16984293	0.84[ASN][1000 genomes]
rs189069	0.92[ASN][1000 genomes]
rs2584263	0.87[ASN][1000 genomes]
rs2870437	0.91[ASN][1000 genomes]
rs329693	0.94[ASN][1000 genomes]
rs57822302	0.87[ASN][1000 genomes]
rs60920143	0.84[ASN][1000 genomes]
rs6509713	0.83[ASN][1000 genomes]
rs7248038	0.87[ASN][1000 genomes]
rs7256272	0.86[ASN][1000 genomes]
rs7256944	0.87[ASN][1000 genomes]
rs73582974	0.85[ASN][1000 genomes]
rs8100426	0.82[ASN][1000 genomes]
rs8105271	0.81[ASN][1000 genomes]
rs8106463	0.89[ASN][1000 genomes]
rs8106476	0.89[ASN][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	nsv1066762	chr19:53112568-53552217	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv432072	chr19:53144788-53554388	Strong transcription ZNF genes & repeats Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1067280	chr19:53193570-53567287	Active TSS Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv544062	chr19:53193570-53567287	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv580030	chr19:53194344-53547394	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
6	nsv530807	chr19:53210488-53695881	Strong transcription Active TSS Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
7	esv3326632	chr19:53371248-53697569	Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
8	esv2758506	chr19:53410459-53652575	ZNF genes & repeats Strong transcription Flanking Active TSS Weak transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
9	esv2758769	chr19:53410459-53652575	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
10	nsv428370	chr19:53410459-53652575	Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
11	esv2757701	chr19:53470514-53554240	Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
12	esv34546	chr19:53478109-53509688	Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	nsv817861	chr19:53484032-53505860	Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
14	nsv458753	chr19:53485090-53552296	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
15	nsv458754	chr19:53485090-53552296	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
16	nsv580046	chr19:53485090-53552296	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:53472800-53495800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr19:53473600-53495800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr19:53474000-53495800	Weak transcription	Fetal Lung	lung
4	chr19:53488200-53495800	Weak transcription	Brain Hippocampus Middle	brain
5	chr19:53489200-53495800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr19:53489800-53495800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr19:53490000-53495800	Weak transcription	Brain Anterior Caudate	brain
8	chr19:53490200-53495800	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr19:53490800-53495800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr19:53490800-53495800	Weak transcription	Dnd41	blood
11	chr19:53492400-53495800	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr19:53493000-53495800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr19:53493000-53495800	Weak transcription	Aorta	Aorta
14	chr19:53493000-53495800	Weak transcription	Fetal Intestine Large	intestine
15	chr19:53493000-53495800	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr19:53493200-53495800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr19:53493600-53496400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
18	chr19:53494400-53495800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr19:53494400-53495800	Enhancers	NHEK	skin
20	chr19:53494400-53496000	Enhancers	HMEC	breast
21	chr19:53494600-53495800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr19:53494600-53495800	Enhancers	Lung	lung
23	chr19:53494600-53498000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr19:53494800-53496000	Weak transcription	Small Intestine	intestine
25	chr19:53495200-53495800	Enhancers	Colonic Mucosa	Colon
26	chr19:53495200-53495800	Enhancers	Gastric	stomach
27	chr19:53495200-53495800	Enhancers	Placenta Amnion	Placenta Amnion
28	chr19:53495200-53495800	Enhancers	Rectal Smooth Muscle	rectum
29	chr19:53495200-53495800	Enhancers	Right Ventricle	heart
30	chr19:53495200-53496000	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
31	chr19:53495200-53496200	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
32	chr19:53495200-53496200	Flanking Active TSS	HUVEC	blood vessel
33	chr19:53495200-53496400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr19:53495200-53496400	Flanking Active TSS	Stomach Smooth Muscle	stomach
35	chr19:53495200-53497400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr19:53495400-53495800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr19:53495400-53495800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr19:53495400-53495800	Enhancers	Primary T helper cells fromperipheralblood	blood
39	chr19:53495400-53495800	Enhancers	Muscle Satellite Cultured Cells	--
40	chr19:53495400-53495800	Enhancers	Cortex derived primary cultured neurospheres	brain
41	chr19:53495400-53495800	Enhancers	Adipose Nuclei	Adipose
42	chr19:53495400-53495800	Enhancers	Fetal Intestine Small	intestine
43	chr19:53495400-53495800	Enhancers	Fetal Muscle Trunk	muscle
44	chr19:53495400-53495800	Enhancers	Fetal Stomach	stomach
45	chr19:53495400-53495800	Enhancers	Left Ventricle	heart
46	chr19:53495400-53495800	Enhancers	Ovary	ovary
47	chr19:53495400-53495800	Enhancers	Pancreas	Pancrea
48	chr19:53495400-53495800	Enhancers	Psoas Muscle	Psoas
49	chr19:53495400-53495800	Enhancers	Right Atrium	heart
50	chr19:53495400-53496000	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell

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