Variant report

Variant	esv1795996
Chromosome Location	chr19:53099297-53100585
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:1)
LncRNA
region (count:15)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:1 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:53073369..53074894-chr19:53098457..53100751,2	MCF-7	breast:

(count:15 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF701-1	chr19:53099792-53100056	NONHSAT067566
2	lnc-ZNF701-1	chr19:53098870-53100598	NONHSAT067565
3	lnc-ZNF701-1	chr19:53099127-53099572	NONHSAT067566
4	lnc-ZNF701-1	chr19:53099657-53099709	NONHSAT067568
5	lnc-ZNF701-1	chr19:53100112-53100660	NONHSAT067566
6	lnc-ZNF701-1	chr19:53099792-53099841	NONHSAT067568
7	lnc-ZNF701-1	chr19:53099657-53099709	NONHSAT067566
8	lnc-ZNF701-1	chr19:53099127-53099642	NONHSAT067567
9	lnc-ZNF701-1	chr19:53100261-53100564	NONHSAT067568
10	lnc-ZNF701-1	chr19:53099937-53100823	NONHSAT067569
11	lnc-ZNF701-1	chr19:53099127-53099572	NONHSAT067568
12	lnc-ZNF701-1	chr19:53100112-53100660	NONHSAT067567
13	lnc-ZNF701-1	chr19:53100112-53100176	NONHSAT067568
14	lnc-ZNF701-1	chr19:53099890-53100056	NONHSAT067567
15	lnc-ZNF701-1	chr19:53100006-53100056	NONHSAT067568

No data

Variant related genes	Relation type
ENSG00000167562	chromatin interactions

Extended variants
information (count: 71 )
Associated
traits (count: 65 )

Variant overlapped rSNPs/rCNVs (count:71 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs2068068	chr19:53099297-53099298	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
2	rs2068067	chr19:53099308-53099309	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
3	rs544481262	chr19:53099331-53099332	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
4	rs562754353	chr19:53099402-53099403	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
5	rs2068066	chr19:53099409-53099410	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
6	rs542000616	chr19:53099427-53099428	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
7	rs572369245	chr19:53099432-53099433	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
8	rs149626098	chr19:53099504-53099505	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
9	rs201651516	chr19:53099510-53099511	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
10	rs528541257	chr19:53099548-53099549	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
11	rs546702241	chr19:53099561-53099562	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
12	rs564901001	chr19:53099586-53099587	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
13	rs4801920	chr19:53099608-53099609	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
14	rs144377485	chr19:53099634-53099635	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
15	rs4801921	chr19:53099637-53099638	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
16	rs4801922	chr19:53099653-53099654	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
17	rs35261656	chr19:53099686-53099687	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
18	rs371411160	chr19:53099688-53099689	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
19	rs375842740	chr19:53099689-53099690	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
20	rs370012157	chr19:53099690-53099691	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
21	rs4802975	chr19:53099709-53099710	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
22	rs566447852	chr19:53099757-53099758	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
23	rs4801923	chr19:53099758-53099759	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
24	rs558599447	chr19:53099783-53099784	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
25	rs576946861	chr19:53099787-53099788	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
26	rs4802976	chr19:53099796-53099797	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
27	rs200489759	chr19:53099825-53099826	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
28	rs148805918	chr19:53099829-53099830	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
29	rs144592313	chr19:53099833-53099834	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
30	rs114147611	chr19:53099840-53099841	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
31	rs533982595	chr19:53099878-53099879	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
32	rs371988685	chr19:53099917-53099918	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
33	rs140032218	chr19:53099920-53099921	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
34	rs370185377	chr19:53099960-53099961	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
35	rs187944650	chr19:53099961-53099962	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
36	rs374903736	chr19:53099964-53099965	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
37	rs2279151	chr19:53099965-53099966	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
38	rs2279152	chr19:53099975-53099976	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
39	rs369679247	chr19:53100053-53100054	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
40	rs377386229	chr19:53100063-53100064	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
41	rs530369838	chr19:53100081-53100082	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
42	rs371953273	chr19:53100083-53100084	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
43	rs548516959	chr19:53100112-53100113	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
44	rs570727065	chr19:53100170-53100171	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
45	rs34531967	chr19:53100188-53100189	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
46	rs370473443	chr19:53100212-53100213	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
47	rs375078248	chr19:53100213-53100214	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
48	rs369944114	chr19:53100259-53100260	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
49	rs372710102	chr19:53100269-53100270	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
50	rs375970085	chr19:53100277-53100278	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:65)

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
low-grade B-cell lymphoma tumor	18367492	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
Hodgkin''s lymphoma	18641027	CNVD
Myelofibrosis	22110671	CNVD
Gastric adenocarcinoma	19115996	CNVD
Acute lymphoblastic leukemia	17690704	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Lung cancer	18438408	CNVD
Basal cell lymphoma	19029149	CNVD
Diffuse large b-cell lymphoma	19029149	CNVD
Colorectal cancer	16272173	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Ovarian cancer	21781307	CNVD
Neuroblastoma	20406844	CNVD
Cancer	20164920	CNVD
Melanoma	17363583	CNVD
Breast cancer	21785460	CNVD
Non-syndromic sensorineural hearing loss	18451855	CNVD
Non-syndromic sensorineural hearing loss	17431168	CNVD

Chromatin state (count:182 , 50 per page) page: 1 2 3 4

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:53074600-53103600	Weak transcription	Fetal Brain Male	brain
2	chr19:53087400-53103600	Weak transcription	Brain Substantia Nigra	brain
3	chr19:53087600-53099400	Weak transcription	Brain Angular Gyrus	brain
4	chr19:53087600-53103600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr19:53088400-53103600	Weak transcription	Psoas Muscle	Psoas
6	chr19:53088800-53103600	Weak transcription	Colon Smooth Muscle	Colon
7	chr19:53088800-53103600	Weak transcription	Right Ventricle	heart
8	chr19:53088800-53103800	Weak transcription	Right Atrium	heart
9	chr19:53089000-53103800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr19:53089400-53099400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr19:53089800-53100000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr19:53090800-53100000	Weak transcription	Fetal Brain Female	brain
13	chr19:53091000-53104200	Weak transcription	Spleen	Spleen
14	chr19:53091200-53099400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr19:53091600-53099400	Weak transcription	HSMM	muscle
16	chr19:53092200-53103600	Weak transcription	Gastric	stomach
17	chr19:53094000-53099400	Weak transcription	Brain Germinal Matrix	brain
18	chr19:53094000-53103800	Weak transcription	Aorta	Aorta
19	chr19:53094200-53099400	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr19:53095000-53103400	Weak transcription	Fetal Heart	heart
21	chr19:53095200-53099800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr19:53095600-53099800	Weak transcription	NHLF	lung
23	chr19:53095800-53099400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr19:53096000-53103600	Weak transcription	Pancreas	Pancrea
25	chr19:53096000-53103800	Weak transcription	Brain Cingulate Gyrus	brain
26	chr19:53096000-53104000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr19:53096600-53102200	ZNF genes & repeats	Fetal Intestine Large	intestine
28	chr19:53097400-53100400	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
29	chr19:53097600-53099400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr19:53097600-53100000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr19:53097600-53100000	ZNF genes & repeats	Thymus	Thymus
32	chr19:53097600-53100200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr19:53097600-53100200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr19:53097600-53100200	ZNF genes & repeats	Liver	Liver
35	chr19:53097600-53100400	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
36	chr19:53097600-53100400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr19:53097600-53101000	Strong transcription	Dnd41	blood
38	chr19:53097600-53101200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr19:53097600-53101200	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
40	chr19:53097600-53101200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
41	chr19:53097600-53102200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr19:53097800-53099800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr19:53097800-53100400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
44	chr19:53097800-53100600	Strong transcription	Placenta	Placenta
45	chr19:53097800-53100800	Strong transcription	HUES64 Cell Line	embryonic stem cell
46	chr19:53097800-53101000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
47	chr19:53097800-53102800	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr19:53098000-53099400	Strong transcription	Primary T helper cells PMA-I stimulated	--
49	chr19:53098000-53099600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr19:53098000-53099600	Strong transcription	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links