Variant report

Variant	rs546907025
Chromosome Location	chr19:52732484-52732485
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:52692286..52695844-chr19:52730833..52733280,4	MCF-7	breast:
2	chr19:52730627..52732883-chr19:52789456..52792184,2	K562	blood:
3	chr19:52731463..52733004-chr19:52746080..52748191,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF836-2	chr19:52731708-52732553	NONHSAT067525
2	lnc-ZNF836-2	chr19:52732461-52732811	ENSG00000268015.1

Variant related genes	Relation type
ENSG00000105568	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1065410	chr19:52103914-52889530	Genic enhancers Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking 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 miRNA target site	596 gene(s)	inside rSNPs	diseases
2	esv3366000	chr19:52491073-52842946	Strong transcription ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS 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 miRNA target site	48 gene(s)	inside rSNPs	diseases
3	nsv1066015	chr19:52502213-52890308	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Genic enhancers Active TSS Strong transcription 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 miRNA target site	49 gene(s)	inside rSNPs	diseases
4	nsv544059	chr19:52502213-52890308	Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv962989	chr19:52732337-52742183	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:52694600-52732800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr19:52695400-52733200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
3	chr19:52696000-52733000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr19:52697600-52733200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
5	chr19:52697800-52732600	Strong transcription	Primary T cells from cord blood	blood
6	chr19:52697800-52733000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr19:52698200-52732600	Strong transcription	Fetal Brain Female	brain
8	chr19:52703000-52732600	Strong transcription	Primary neutrophils fromperipheralblood	blood
9	chr19:52703000-52734600	Strong transcription	Fetal Stomach	stomach
10	chr19:52703200-52732800	Strong transcription	Brain Germinal Matrix	brain
11	chr19:52703200-52733200	Strong transcription	Duodenum Mucosa	Duodenum
12	chr19:52703200-52734000	Strong transcription	Lung	lung
13	chr19:52703600-52733200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr19:52703800-52733200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr19:52704000-52733200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr19:52704400-52733000	Strong transcription	Colonic Mucosa	Colon
17	chr19:52704400-52733200	Strong transcription	Osteobl	bone
18	chr19:52705000-52733000	Strong transcription	Brain Inferior Temporal Lobe	brain
19	chr19:52705000-52735200	Strong transcription	Stomach Smooth Muscle	stomach
20	chr19:52709000-52733200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr19:52709400-52732600	Strong transcription	Spleen	Spleen
22	chr19:52710200-52733000	Strong transcription	Skeletal Muscle Male	skeletal muscle
23	chr19:52711200-52733000	Strong transcription	Thymus	Thymus
24	chr19:52713000-52733400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr19:52717600-52732800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr19:52717800-52732600	Strong transcription	Placenta Amnion	Placenta Amnion
27	chr19:52718000-52734200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr19:52718800-52733000	Strong transcription	HMEC	breast
29	chr19:52719000-52735400	ZNF genes & repeats	A549	lung
30	chr19:52722200-52732600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr19:52722200-52733200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr19:52723600-52735200	Strong transcription	Fetal Muscle Leg	muscle
33	chr19:52723800-52733400	Strong transcription	Fetal Muscle Trunk	muscle
34	chr19:52724600-52733000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr19:52725600-52733000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr19:52727000-52732600	Strong transcription	Esophagus	oesophagus
37	chr19:52727200-52733400	Strong transcription	Fetal Intestine Small	intestine
38	chr19:52727600-52737800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr19:52730200-52734400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr19:52730200-52737800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
41	chr19:52730400-52732800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr19:52730400-52734000	Weak transcription	Small Intestine	intestine
43	chr19:52730600-52732800	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
44	chr19:52730800-52741000	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr19:52731000-52736800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr19:52731000-52736800	Weak transcription	Stomach Mucosa	stomach
47	chr19:52731200-52734400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr19:52731400-52732600	Weak transcription	Fetal Intestine Large	intestine
49	chr19:52731400-52733000	Weak transcription	Primary T cells fromperipheralblood	blood
50	chr19:52731400-52733000	Strong transcription	Placenta	Placenta

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