Variant report

Variant	nsv1042965
Chromosome Location	chr9:110100745-110126661
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:27)
LncRNA
region (count:7)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:27 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:110125144..110126735-chr9:110143074..110144710,2	MCF-7	breast:
2	chr4:40649327..40650237-chr9:110101079..110101645,2	MCF-7	breast:
3	chr9:110102299..110105687-chr9:110106035..110108571,3	MCF-7	breast:
4	chr9:110110289..110113154-chr9:110135338..110137467,2	MCF-7	breast:
5	chr9:110111704..110113964-chr9:110124428..110126496,2	MCF-7	breast:
6	chr9:110079426..110081266-chr9:110101654..110103447,2	MCF-7	breast:
7	chr9:110090073..110092495-chr9:110102764..110105284,2	MCF-7	breast:
8	chr9:110106380..110109788-chr9:110111716..110114487,3	MCF-7	breast:
9	chr9:110099927..110101842-chr9:110102042..110103767,2	MCF-7	breast:
10	chr9:110107726..110110330-chr9:110112564..110114575,2	MCF-7	breast:
11	chr9:110107726..110110330-chr9:110112564..110114575,2	MCF-7	breast:
12	chr9:110001311..110002427-chr9:110103159..110104135,5	MCF-7	breast:
13	chr9:110116970..110119545-chr9:110250566..110253346,2	MCF-7	breast:
14	chr9:110001502..110002534-chr9:110103139..110104123,8	MCF-7	breast:
15	chr9:110112610..110115972-chr9:110119503..110124106,4	MCF-7	breast:
16	chr9:110112610..110115972-chr9:110119503..110124106,4	MCF-7	breast:
17	chr9:110044838..110048328-chr9:110105313..110107824,3	K562	blood:
18	chr9:110045030..110047891-chr9:110112419..110115505,4	MCF-7	breast:
19	chr9:109991080..109992834-chr9:110102053..110103611,2	MCF-7	breast:
20	chr9:108672760..108675101-chr9:110098994..110101048,2	MCF-7	breast:
21	chr9:110102299..110105687-chr9:110106035..110108571,3	MCF-7	breast:
22	chr9:110094116..110096830-chr9:110102981..110104724,2	K562	blood:
23	chr9:110112324..110113883-chr9:110152328..110154278,2	MCF-7	breast:
24	chr9:110099927..110101842-chr9:110102042..110103767,2	MCF-7	breast:
25	chr9:110111704..110113964-chr9:110124428..110126496,2	MCF-7	breast:
26	chr9:110094116..110096830-chr9:110102084..110104724,3	K562	blood:
27	chr9:110106380..110109788-chr9:110111716..110114487,3	MCF-7	breast:

(count:7 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KLF4-2	chr9:110102599-110102816	XLOC_007822
2	lnc-RAD23B-1	chr9:110100744-110101430	XLOC_007505
3	lnc-RAD23B-2	chr9:110102407-110103331	XLOC_007506
4	lnc-RAD23B-2	chr9:110116900-110116943	XLOC_007506
5	lnc-RAD23B-2	chr9:110103151-110103331	XLOC_007506
6	lnc-RAD23B-2	chr9:110105164-110105236	XLOC_007506
7	lnc-KLF4-2	chr9:110109817-110109891	XLOC_007822

No data

Variant related genes	Relation type
ENSG00000136826	chromatin interactions
ENSG00000119318	chromatin interactions
DAZAP2	miRNA target sites
PGRMC1	miRNA target sites

Extended variants
information (count: 1046 )
Associated
traits (count: 61 )

Variant overlapped rSNPs/rCNVs (count:1046 , 50 per page) page: 1 2 3 4 5 6 7 ... 21

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs10816493	chr9:110100745-110100746	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
2	rs547668572	chr9:110100779-110100780	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
3	rs548707138	chr9:110100819-110100820	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
4	rs566227567	chr9:110100829-110100830	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
5	rs817843	chr9:110100863-110100864	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
6	rs534135650	chr9:110100871-110100872	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
7	rs183975395	chr9:110100900-110100901	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
8	rs558454377	chr9:110100933-110100934	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
9	rs561321897	chr9:110100947-110100948	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
10	rs36016101	chr9:110100952-110100953	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
11	rs185901516	chr9:110100964-110100965	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
12	rs72738228	chr9:110100966-110100967	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
13	rs536067317	chr9:110100972-110100973	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
14	rs149541861	chr9:110100973-110100974	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
15	rs72738229	chr9:110100977-110100978	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
16	rs7028803	chr9:110100979-110100980	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
17	rs190820209	chr9:110101010-110101011	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
18	rs577102715	chr9:110101016-110101017	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
19	rs112940105	chr9:110101018-110101019	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
20	rs140536008	chr9:110101040-110101041	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
21	rs530275952	chr9:110101072-110101073	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
22	rs80312794	chr9:110101076-110101077	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
23	rs560606448	chr9:110101085-110101086	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
24	rs369947357	chr9:110101087-110101088	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
25	rs143912235	chr9:110101100-110101101	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
26	rs79922265	chr9:110101139-110101140	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
27	rs147283703	chr9:110101157-110101158	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
28	rs75186354	chr9:110101209-110101210	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
29	rs550810899	chr9:110101210-110101211	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
30	rs73517791	chr9:110101211-110101212	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
31	rs536416889	chr9:110101224-110101225	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
32	rs73517793	chr9:110101243-110101244	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
33	rs78270255	chr9:110101245-110101246	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
34	rs530218538	chr9:110101246-110101247	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
35	rs75204246	chr9:110101259-110101260	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
36	rs373878650	chr9:110101277-110101278	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
37	rs576473484	chr9:110101279-110101280	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
38	rs543876681	chr9:110101308-110101309	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
39	rs36089467	chr9:110101309-110101310	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
40	rs575053207	chr9:110101342-110101343	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
41	rs542375993	chr9:110101351-110101352	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
42	rs560558542	chr9:110101356-110101357	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
43	rs817844	chr9:110101440-110101441	Strong transcription Weak transcription Enhancers Genic enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
44	rs546358224	chr9:110101455-110101456	Strong transcription Weak transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
45	rs543411431	chr9:110101461-110101462	Strong transcription Weak transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
46	rs377517900	chr9:110101485-110101486	Strong transcription Weak transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
47	rs372305435	chr9:110101515-110101516	Strong transcription Weak transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
48	rs562252722	chr9:110101535-110101536	Strong transcription Weak transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
49	rs531690280	chr9:110101545-110101546	Strong transcription Weak transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
50	rs529381497	chr9:110101547-110101548	Strong transcription Weak transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:61)

Disease	PMID	Source
Chordoma	18071362	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Chordoma	21602918	CNVD
Renal cell carcinoma	18592004	CNVD
Developmental delay	19490664	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Pleomorphic xanthoastrocytoma	20730472	CNVD
Medulloblastoma	21979893	CNVD
microdeletion syndrome	16199537	CNVD
Ovarian cancer	21720365	CNVD
Non-syndromic sensorineural hearing loss	21030649	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Cancer	20164919	CNVD
Urothelial carcinoma	21177765	CNVD
Renal cell carcinoma	21668985	CNVD
Autism	22495311	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Cancer	16751803	CNVD
Myelofibrosis	22110671	CNVD
lymphocytic leukemia	21291569	CNVD
Leukemia	17361228	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Glioblastoma	16823260	CNVD
Leukemia	18688285	CNVD
Non-small cell lung cancer	21044232	CNVD
Brain cancer	20823417	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Astrocytoma	17387387	CNVD
Glioblastoma multiforme	21080181	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Renal cell carcinoma	19461508	CNVD
Neuroblastoma	18923191	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Heart disease	21282601	CNVD
Acute promyelocytic leukemia	19109227	CNVD
Lung cancer	18438408	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Gastrointestinal stromal cancer	16982739	CNVD
Breast cancer	17603634	CNVD
Acute myeloid leukemia	20729466	CNVD
Oral cancer	21386901	CNVD
Invasive pancreatic ductal carcinoma	16982739	CNVD
Prostate cancer	18632612	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Gastric cancer	17908304	CNVD
Malignant fibrous histiocytomas	21085701	CNVD
small cell lung cancer	20016488	CNVD
Cardiac fibroma	18329553	CNVD
Acute lymphoblastic leukemia	21980252	CNVD
Fukuyama congenital muscular dystrophy	21572526	CNVD
Testicular germ cell tumor	18059402	CNVD
Intracranial aneurysm	16715129	CNVD
Breast cancer	21364760	CNVD
Developmental delay	21147756	CNVD
Barrett''s adenocarcinoma	18663352	CNVD
Non-syndromic sensorineural hearing loss	18451855	CNVD
Non-syndromic sensorineural hearing loss	21293372	CNVD

Chromatin state (count:474 , 50 per page) page: 1 2 3 4 5 6 7 ... 10

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110070200-110104400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:110071400-110103000	Weak transcription	Stomach Mucosa	stomach
3	chr9:110087600-110103400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr9:110088400-110101400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
5	chr9:110088600-110101600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr9:110090400-110101800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr9:110091000-110103000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr9:110092000-110101800	Strong transcription	Primary T cells from cord blood	blood
9	chr9:110093000-110103400	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr9:110093200-110101800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr9:110093200-110103200	Strong transcription	A549	lung
12	chr9:110093200-110103400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr9:110094600-110101600	Strong transcription	H9 Cell Line	embryonic stem cell
14	chr9:110094800-110100800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr9:110094800-110101800	Strong transcription	Fetal Intestine Small	intestine
16	chr9:110095000-110104600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr9:110095400-110101600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr9:110095600-110103400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr9:110096000-110103400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr9:110096200-110103200	Weak transcription	Primary B cells from peripheral blood	blood
21	chr9:110096200-110103400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr9:110096600-110103200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr9:110096600-110103400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr9:110096600-110103400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr9:110096800-110101000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr9:110096800-110102600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr9:110096800-110103400	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr9:110096800-110103400	Weak transcription	Rectal Smooth Muscle	rectum
29	chr9:110096800-110107200	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr9:110097000-110100800	Weak transcription	Fetal Lung	lung
31	chr9:110097000-110102600	Weak transcription	Colonic Mucosa	Colon
32	chr9:110097000-110103200	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr9:110097000-110103200	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr9:110097000-110103400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr9:110097000-110103400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr9:110097000-110103400	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr9:110097000-110103400	Weak transcription	Gastric	stomach
38	chr9:110097000-110103600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr9:110097000-110103600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr9:110097000-110104600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr9:110097000-110107200	Weak transcription	Fetal Kidney	kidney
42	chr9:110097000-110107600	Weak transcription	Primary hematopoietic stem cells	blood
43	chr9:110097200-110101000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr9:110097200-110103600	Weak transcription	Primary T helper cells fromperipheralblood	blood
45	chr9:110097200-110113800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr9:110097400-110100800	Weak transcription	Colon Smooth Muscle	Colon
47	chr9:110097400-110101000	Weak transcription	Primary neutrophils fromperipheralblood	blood
48	chr9:110097400-110103200	Weak transcription	Primary B cells from cord blood	blood
49	chr9:110097600-110101000	Genic enhancers	NHLF	lung
50	chr9:110097600-110101200	Genic enhancers	HSMM	muscle

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