Variant report

Variant	rs560895328
Chromosome Location	chr19:56794870-56794871
allele	-/CAA
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA1	chr19:56794500-56794961	HepG2	liver:	n/a	n/a
2	FOXA2	chr19:56794568-56794888	HepG2	liver:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZSCAN5C-1	chr19:56794716-56795256	NONHSAT068093
2	lnc-ZNF582-5	chr19:56794714-56795256	NONHSAT068092

Variant related genes	Relation type
ENSG00000267710	TF binding region

Extended variants
information (count: 10 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064371	chr19:56418215-56842450	ZNF genes & repeats Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	65 gene(s)	inside rSNPs	diseases
2	nsv1057316	chr19:56418215-56849458	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	65 gene(s)	inside rSNPs	diseases
3	nsv912516	chr19:56601298-56981382	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	93 gene(s)	inside rSNPs	diseases
4	nsv1058152	chr19:56703368-56805035	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv544093	chr19:56703368-56805035	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv526325	chr19:56741186-56852035	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
7	nsv949121	chr19:56754719-57591038	ZNF genes & repeats Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
8	nsv1062341	chr19:56794070-57273332	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
9	nsv544094	chr19:56794070-57273332	Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
10	nsv912517	chr19:56794645-56822466	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:56729200-56803000	Weak transcription	Pancreas	Pancrea
2	chr19:56753000-56809000	Weak transcription	Gastric	stomach
3	chr19:56764400-56798600	Weak transcription	Placenta	Placenta
4	chr19:56764600-56799400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr19:56764600-56804000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr19:56766600-56804200	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr19:56770200-56795200	Weak transcription	Brain Cingulate Gyrus	brain
8	chr19:56770200-56799400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr19:56770400-56804400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr19:56771400-56817200	Weak transcription	Fetal Brain Male	brain
11	chr19:56771600-56807000	Weak transcription	Right Ventricle	heart
12	chr19:56772800-56807600	Weak transcription	Primary hematopoietic stem cells	blood
13	chr19:56772800-56824200	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr19:56773000-56807400	Weak transcription	Esophagus	oesophagus
15	chr19:56775800-56815600	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr19:56779600-56820200	Weak transcription	Hela-S3	cervix
17	chr19:56779800-56800000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr19:56779800-56807200	Weak transcription	Left Ventricle	heart
19	chr19:56781400-56804600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr19:56782200-56799200	Weak transcription	Fetal Intestine Small	intestine
21	chr19:56782800-56825200	Weak transcription	Psoas Muscle	Psoas
22	chr19:56783000-56825000	Weak transcription	Stomach Mucosa	stomach
23	chr19:56783200-56804000	Weak transcription	Brain Germinal Matrix	brain
24	chr19:56783200-56805400	Weak transcription	Brain Hippocampus Middle	brain
25	chr19:56784800-56797600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr19:56785200-56798200	Weak transcription	Lung	lung
27	chr19:56785400-56803200	Weak transcription	Stomach Smooth Muscle	stomach
28	chr19:56785400-56823600	Weak transcription	Osteobl	bone
29	chr19:56785600-56805400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr19:56785800-56802800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr19:56785800-56804000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr19:56786200-56804200	Weak transcription	Thymus	Thymus
33	chr19:56786800-56813000	Weak transcription	Primary T helper cells PMA-I stimulated	--
34	chr19:56788000-56804400	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr19:56788200-56824400	Weak transcription	Rectal Smooth Muscle	rectum
36	chr19:56788800-56802400	Weak transcription	Duodenum Mucosa	Duodenum
37	chr19:56788800-56803200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr19:56788800-56804200	Weak transcription	Colonic Mucosa	Colon
39	chr19:56788800-56804200	Weak transcription	HSMM	muscle
40	chr19:56788800-56804400	Weak transcription	Ovary	ovary
41	chr19:56788800-56805800	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr19:56788800-56806000	Weak transcription	Brain Anterior Caudate	brain
43	chr19:56788800-56813000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr19:56789000-56799200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr19:56789000-56799400	Weak transcription	Fetal Muscle Trunk	muscle
46	chr19:56789000-56799800	Weak transcription	A549	lung
47	chr19:56789000-56801600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr19:56789000-56802400	Weak transcription	Adipose Nuclei	Adipose
49	chr19:56789000-56803000	Weak transcription	HSMMtube	muscle
50	chr19:56789000-56804000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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