Variant report

Variant	nsv580387
Chromosome Location	chr19:57026396-57040070
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZFP28-2	chr19:57037069-57037390	NONHSAT068165

Variant related genes	Relation type
BRCA1	miRNA target sites

Extended variants
information (count: 526 )
Associated
traits (count: 67 )

Variant overlapped rSNPs/rCNVs (count:526 , 50 per page) page: 1 2 3 4 5 6 7 ... 11

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs16987296	chr19:57026396-57026397	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
2	rs577049903	chr19:57026408-57026409	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs12986047	chr19:57026414-57026415	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
4	rs556511022	chr19:57026529-57026530	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs12984487	chr19:57026539-57026540	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
6	rs191070650	chr19:57026540-57026541	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
7	rs554821057	chr19:57026577-57026578	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
8	rs76751211	chr19:57026616-57026617	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
9	rs57000964	chr19:57026624-57026625	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
10	rs542254335	chr19:57026650-57026651	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs184066261	chr19:57026672-57026673	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs142653514	chr19:57026754-57026755	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
13	rs189038809	chr19:57026799-57026800	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
14	rs192428183	chr19:57026832-57026833	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
15	rs545528990	chr19:57026834-57026835	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
16	rs576722791	chr19:57026865-57026866	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
17	rs184398068	chr19:57026949-57026950	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
18	rs148123178	chr19:57026955-57026956	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
19	rs561963696	chr19:57026999-57027000	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs188035017	chr19:57027013-57027014	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
21	rs547493218	chr19:57027014-57027015	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs547665751	chr19:57027025-57027026	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs16987299	chr19:57027051-57027052	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
24	rs533463790	chr19:57027056-57027057	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs549935950	chr19:57027145-57027146	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs569999967	chr19:57027180-57027181	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs141837908	chr19:57027234-57027235	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs73629920	chr19:57027236-57027237	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
29	rs76217531	chr19:57027264-57027265	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
30	rs191553627	chr19:57027266-57027267	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
31	rs79884794	chr19:57027287-57027288	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
32	rs554007991	chr19:57027289-57027290	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
33	rs184335467	chr19:57027320-57027321	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs539507882	chr19:57027326-57027327	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs188790773	chr19:57027362-57027363	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs575963178	chr19:57027407-57027408	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs542032433	chr19:57027485-57027486	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs181539789	chr19:57027505-57027506	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs113047484	chr19:57027537-57027538	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
40	rs377566970	chr19:57027575-57027576	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
41	rs562002367	chr19:57027576-57027577	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs367966722	chr19:57027596-57027597	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs371844149	chr19:57027598-57027599	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs10419939	chr19:57027606-57027607	ZNF genes & repeats Strong transcription Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
45	rs201759758	chr19:57027619-57027620	ZNF genes & repeats Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs199703729	chr19:57027658-57027659	ZNF genes & repeats Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs77075347	chr19:57027673-57027674	ZNF genes & repeats Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs564679542	chr19:57027695-57027696	ZNF genes & repeats Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs150191675	chr19:57027696-57027697	ZNF genes & repeats Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs138064197	chr19:57027720-57027721	ZNF genes & repeats Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:67)

Disease	PMID	Source
Myelodysplastic syndrome	17634407	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Chordoma	21602918	CNVD
Ewing''s sarcoma	21437220	CNVD
Glioblastoma multiforme	21080181	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Cancer	21637783	CNVD
Retinoblastoma	21504564	CNVD
Medulloblastoma	21979893	CNVD
Ovarian cancer	21720365	CNVD
Cancer	20164919	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Prostate cancer	18632612	CNVD
Ductal carcinoma	22052326	CNVD
Congenital nephrotic syndrome	18421352	CNVD
Astrocytoma	17934521	CNVD
Leukemia	17361228	CNVD
Adenoid cystic carcinoma	17372589	CNVD
Breast cancer	17603634	CNVD
Glioma	21971842	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Endometrial cancer	22040021	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Oligodendroglial tumors	17285580	CNVD
renal disease	20603712	CNVD
Adenoid cystic carcinoma	18698036	CNVD
Salivary gland adenoid cystic carcinoma	17545515	CNVD
Breast cancer	16608533	CNVD
Neuroblastoma	18923191	CNVD
Chordoma	18071362	CNVD
Urothelial carcinoma	21177765	CNVD
Metanephric adenoma	20802469	CNVD
Acute myeloid leukemia	16864856	CNVD
Bladder cancer	21909424	CNVD
Medulloblastoma	16783165	CNVD
Acute myeloid leukemia	20729466	CNVD
Ovarian cancer	22174824	CNVD
Multiple myeloma	16616336	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Wilms tumour	21544195	CNVD
Congenital anomalies of the kidney and urinary tract	18852474	CNVD
Glioblastoma multiforme	17002787	CNVD
Cervical cancer	21062161	CNVD
Primary central nervous system lymphoma	21088137	CNVD
Prostate cancer	16573809	CNVD
small cell lung cancer	20016488	CNVD
Acute lymphoblastic leukemia	17690704	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Lung cancer	18438408	CNVD
Colorectal cancer	16272173	CNVD
Ovarian cancer	21781307	CNVD
Neuroblastoma	20406844	CNVD
Breast cancer	21785460	CNVD
Myelofibrosis	22110671	CNVD
T-cell acute lymphoblastic leukemia	19406988	CNVD
Alzheimer''s disease	22166940	CNVD
Heart disease	21282601	CNVD
Diffuse large b-cell lymphoma	18287131	CNVD
Glioblastoma multiforme	21922591	CNVD
low-grade B-cell lymphoma tumor	18367492	CNVD
Non-syndromic sensorineural hearing loss	18496225	CNVD
Basal cell lymphoma	19029149	CNVD
Diffuse large b-cell lymphoma	19029149	CNVD
Breast cancer	20409316	CNVD
early-passage human iPS cells	21368824	CNVD
Non-syndromic sensorineural hearing loss	17122850	CNVD

Chromatin state (count:279 , 50 per page) page: 1 2 3 4 5 6

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:57020200-57027200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr19:57020200-57029800	Weak transcription	Gastric	stomach
3	chr19:57020400-57027600	Weak transcription	Osteobl	bone
4	chr19:57020400-57030400	Weak transcription	Right Ventricle	heart
5	chr19:57020600-57028800	Weak transcription	Fetal Stomach	stomach
6	chr19:57021000-57027400	Weak transcription	HSMM	muscle
7	chr19:57021400-57027400	Weak transcription	Brain Germinal Matrix	brain
8	chr19:57022600-57042800	ZNF genes & repeats	Liver	Liver
9	chr19:57022800-57031200	Strong transcription	Skeletal Muscle Male	skeletal muscle
10	chr19:57022800-57049200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr19:57023000-57037400	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr19:57023400-57029800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr19:57023800-57028200	Strong transcription	Placenta	Placenta
14	chr19:57023800-57028400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr19:57023800-57028400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr19:57024200-57028400	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
17	chr19:57024200-57030400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr19:57024400-57027200	Strong transcription	Muscle Satellite Cultured Cells	--
19	chr19:57024400-57028600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
20	chr19:57024400-57038800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr19:57024800-57027000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr19:57025200-57027200	Strong transcription	Rectal Mucosa Donor 29	rectum
23	chr19:57025400-57026600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
24	chr19:57025400-57028400	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
25	chr19:57025400-57029600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr19:57025600-57026600	ZNF genes & repeats	Colon Smooth Muscle	Colon
27	chr19:57025600-57028200	Strong transcription	Brain Cingulate Gyrus	brain
28	chr19:57025600-57028400	ZNF genes & repeats	Brain Substantia Nigra	brain
29	chr19:57025600-57028400	Strong transcription	Stomach Smooth Muscle	stomach
30	chr19:57025600-57028600	ZNF genes & repeats	Brain Anterior Caudate	brain
31	chr19:57025600-57038200	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr19:57025600-57049200	ZNF genes & repeats	Adipose Nuclei	Adipose
33	chr19:57025800-57026400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr19:57025800-57026400	ZNF genes & repeats	Brain Angular Gyrus	brain
35	chr19:57025800-57027400	Weak transcription	Aorta	Aorta
36	chr19:57025800-57027400	Weak transcription	Left Ventricle	heart
37	chr19:57025800-57027600	Weak transcription	Fetal Muscle Leg	muscle
38	chr19:57025800-57027800	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr19:57025800-57028000	Strong transcription	Placenta Amnion	Placenta Amnion
40	chr19:57025800-57028000	Strong transcription	NHDF-Ad	bronchial
41	chr19:57025800-57028400	ZNF genes & repeats	Fetal Kidney	kidney
42	chr19:57025800-57030600	Weak transcription	Pancreas	Pancrea
43	chr19:57025800-57031200	Weak transcription	Esophagus	oesophagus
44	chr19:57026000-57027000	Strong transcription	Fetal Brain Male	brain
45	chr19:57026000-57027200	Strong transcription	Cortex derived primary cultured neurospheres	brain
46	chr19:57026000-57027200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr19:57026000-57027400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr19:57026000-57027400	Strong transcription	Brain Hippocampus Middle	brain
49	chr19:57026000-57027400	Strong transcription	Fetal Brain Female	brain
50	chr19:57026000-57040200	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain

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