Variant report

Variant	nsv594961
Chromosome Location	chr4:103780496-103783359
allele	n/a
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	CBX3	chr4:103780219-103780585	K562	blood:	n/a	n/a
2	CBX3	chr4:103780722-103781005	K562	blood:	n/a	n/a
3	CBX3	chr4:103780235-103780691	HCT-116	colon:	n/a	n/a
4	CBX3	chr4:103780106-103780649	K562	blood:	n/a	n/a
5	CCNT2	chr4:103782119-103782224	K562	blood:	n/a	n/a
6	CTCF	chr4:103781960-103782110	WERI-Rb-1	eye:	n/a	n/a
7	E2F6	chr4:103782194-103782326	K562	blood:	n/a	n/a
8	GATA1	chr4:103781676-103782280	PBDE	blood:	n/a	n/a
9	KAP1	chr4:103779820-103780845	K562	blood:	n/a	n/a
10	KAP1	chr4:103780272-103780620	U2OS	brain:	n/a	n/a
11	KAP1	chr4:103780140-103780854	HEK293	kidney:	n/a	n/a
12	POLR2A	chr4:103781708-103781959	K562	blood:	n/a	n/a
13	SETDB1	chr4:103779940-103780960	U2OS	brain:	n/a	n/a
14	SPI1	chr4:103783061-103783616	HL-60	blood:	n/a	chr4:103783394-103783407 chr4:103783382-103783391 chr4:103783380-103783393 chr4:103783337-103783344 chr4:103783395-103783408 chr4:103783336-103783345 chr4:103783334-103783347 chr4:103783397-103783406
15	SPI1	chr4:103783093-103783535	HL-60	blood:	n/a	chr4:103783394-103783407 chr4:103783382-103783391 chr4:103783380-103783393 chr4:103783337-103783344 chr4:103783395-103783408 chr4:103783336-103783345 chr4:103783334-103783347 chr4:103783397-103783406
16	SPI1	chr4:103783264-103783417	K562	blood:	n/a	chr4:103783394-103783407 chr4:103783382-103783391 chr4:103783380-103783393 chr4:103783337-103783344 chr4:103783395-103783408 chr4:103783336-103783345 chr4:103783334-103783347 chr4:103783397-103783406
17	STAT3	chr4:103780431-103780615	MCF10A-Er-Src	breast:	n/a	n/a
18	TRIM28	chr4:103780264-103780545	K562	blood:	n/a	n/a
19	TRIM28	chr4:103780221-103780651	K562	blood:	n/a	n/a
20	ZNF143	chr4:103780292-103780600	H1-hESC	embryonic stem cell:	n/a	n/a
21	ZNF143	chr4:103780279-103780586	K562	blood:	n/a	n/a
22	ZNF143	chr4:103780265-103780609	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr4:103782734..103784847-chr4:103785870..103787705,2	MCF-7	breast:
2	chr4:103741330..103752134-chr4:103778393..103796398,92	K562	blood:
3	chr4:103746438..103750337-chr4:103782400..103786138,6	MCF-7	breast:
4	chr4:103775754..103778384-chr4:103782833..103785617,2	MCF-7	breast:
5	chr4:103781973..103785521-chr4:103788128..103792048,4	MCF-7	breast:
6	chr4:103736995..103756245-chr4:103778393..103800311,117	K562	blood:
7	chr4:103757925..103760228-chr4:103782951..103785960,3	K562	blood:
8	chr4:103782723..103785636-chr4:103787155..103789919,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000238948	TF binding region
ENSG00000246560	chromatin interactions
ENSG00000252739	chromatin interactions
ENSG00000109332	chromatin interactions
ENSG00000145354	chromatin interactions

Extended variants
information (count: 108 )
Associated
traits (count: 78 )

Variant overlapped rSNPs/rCNVs (count:108 , 50 per page) page: 1 2 3

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs223346	chr4:103780496-103780497	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
2	rs531043849	chr4:103780503-103780504	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
3	rs223345	chr4:103780523-103780524	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	mRNA abundance
4	rs567698398	chr4:103780525-103780526	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
5	rs528355170	chr4:103780549-103780550	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
6	rs546457502	chr4:103780552-103780553	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
7	rs77054971	chr4:103780553-103780554	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
8	rs4428288	chr4:103780647-103780648	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
9	rs557131531	chr4:103780671-103780672	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
10	rs141564895	chr4:103780700-103780701	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
11	rs58613587	chr4:103780743-103780744	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
12	rs536394727	chr4:103780795-103780796	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
13	rs577855133	chr4:103780817-103780818	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
14	rs193227040	chr4:103780838-103780839	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
15	rs374955513	chr4:103780863-103780864	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
16	rs574677106	chr4:103780871-103780872	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
17	rs572907788	chr4:103780888-103780889	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
18	rs223344	chr4:103780922-103780923	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	Overlapped CNVs	mRNA abundance
19	rs146178936	chr4:103780978-103780979	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
20	rs116094498	chr4:103781008-103781009	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
21	rs373714702	chr4:103781009-103781010	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
22	rs201740550	chr4:103781020-103781021	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
23	rs185618552	chr4:103781034-103781035	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
24	rs563947389	chr4:103781038-103781039	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
25	rs547839430	chr4:103781048-103781049	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
26	rs575645466	chr4:103781063-103781064	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
27	rs566145297	chr4:103781064-103781065	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
28	rs223343	chr4:103781065-103781066	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	mRNA abundance
29	rs223342	chr4:103781159-103781160	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	mRNA abundance
30	rs576806312	chr4:103781219-103781220	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
31	rs564798385	chr4:103781250-103781251	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
32	rs532315884	chr4:103781251-103781252	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
33	rs550502223	chr4:103781267-103781268	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
34	rs569064197	chr4:103781283-103781284	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
35	rs190076026	chr4:103781296-103781297	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
36	rs181728053	chr4:103781329-103781330	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
37	rs566591081	chr4:103781341-103781342	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
38	rs114594793	chr4:103781368-103781369	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
39	rs184156839	chr4:103781399-103781400	Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
40	rs578247666	chr4:103781420-103781421	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
41	rs372393724	chr4:103781496-103781497	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
42	rs200198478	chr4:103781532-103781533	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
43	rs373164292	chr4:103781533-103781534	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
44	rs376414063	chr4:103781535-103781536	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
45	rs200839498	chr4:103781538-103781539	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
46	rs75072098	chr4:103781546-103781547	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
47	rs113422645	chr4:103781559-103781560	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
48	rs540255423	chr4:103781561-103781562	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
49	rs369627794	chr4:103781562-103781563	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
50	rs644930	chr4:103781574-103781575	Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:78)

Disease	PMID	Source
Acute lymphoblastic leukemia	22237106	CNVD
Glioblastoma multiforme	21080181	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Chordoma	21602918	CNVD
HIV/AIDS	22032296	CNVD
Medulloblastoma	21979893	CNVD
Neuroblastoma	18923191	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Intellectual disability	22102821	CNVD
Autism	22495311	CNVD
Breast cancer	21858162	CNVD
Small bowel adenocarcinoma	21586687	CNVD
Gastric cancer	21586687	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Melanoma	18172304	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Breast cancer	17603634	CNVD
Hepatocellular carcinoma	16750200	CNVD
Myxofibrosarcoma	16751306	CNVD
Esophageal squamous carcinoma	18350619	CNVD
Breast cancer	16272173	CNVD
Colorectal cancer	19359472	CNVD
Malignant mesothelioma	18160781	CNVD
Medulloblastoma	18056178	CNVD
Multiple myeloma	17077331	CNVD
Pleural malignant mesothelioma	18160781	CNVD
Primary mediastinal b-cell lymphoma	17728785	CNVD
Oral squamous cell carcinoma	17134496	CNVD
4q-syndrome	17576883	CNVD
Cancer	21637783	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Colorectal cancer	20709793	CNVD
Muscular dystrophy	21149563	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	19960244	CNVD
Glioblastoma multiforme	17387387	CNVD
Hepatocellular carcinoma	22174799	CNVD
Liposarcoma	21253554	CNVD
Oligodendroglial tumors	17285580	CNVD
Cervical cancer	21062161	CNVD
Metanephric adenoma	20802469	CNVD
Breast cancer	16608533	CNVD
Adenoid cystic carcinoma	18698036	CNVD
Lung cancer	19208797	CNVD
Wilms tumour	21544195	CNVD
Breast cancer	21785460	CNVD
Myelodysplastic syndrome	21251322	CNVD
Lung cancer	18438408	CNVD
Cancer	22429812	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Cancer	21183584	CNVD
primary effusion lymphomas	17116491	CNVD
small cell lung cancer	20016488	CNVD
Splenic marginal zone lymphoma	21957467	CNVD
Breast cancer	17133270	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Colorectal cancer	20459617	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Congenital anomalies of the kidney and urinary tract	20505237	CNVD
Breast cancer	17393978	CNVD
Ovarian cancer	21720365	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Esophageal cancer	21851588	CNVD
Prostate cancer	16573809	CNVD
Multiple myeloma	16616336	CNVD
Melanoma	20688739	CNVD
Breast cancer	16397240	CNVD
Acute myeloid leukemia	18000384	CNVD
Cutaneous T-cell lymphoma	21881587	CNVD
Myelofibrosis	22110671	CNVD
myeloid cancer	21057493	CNVD
Cancer	20164919	CNVD
Breast cancer	22522925	CNVD
Non-syndromic sensorineural hearing loss	18451855	CNVD
Pancreatic cancer	17952125	CNVD

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:103750800-103788000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr4:103765000-103783600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr4:103765400-103788800	Weak transcription	Left Ventricle	heart
4	chr4:103768600-103781800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr4:103779000-103787600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr4:103780000-103781000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr4:103780000-103781000	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr4:103780000-103782000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
9	chr4:103780000-103788000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr4:103780200-103780800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
11	chr4:103780200-103782200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr4:103780200-103782800	ZNF genes & repeats	Dnd41	blood
13	chr4:103780200-103789200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr4:103780400-103781000	ZNF genes & repeats	Primary T cells from cord blood	blood
15	chr4:103780400-103788800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr4:103780600-103781400	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr4:103780800-103788000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr4:103781000-103783000	Weak transcription	Brain Angular Gyrus	brain
19	chr4:103781000-103785000	Weak transcription	Primary T cells from cord blood	blood
20	chr4:103781000-103788800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr4:103781000-103789400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr4:103781200-103785800	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr4:103781200-103788600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr4:103781400-103781800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr4:103781400-103782200	Strong transcription	H1 Cell Line	embryonic stem cell
26	chr4:103781400-103782400	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
27	chr4:103781400-103782600	ZNF genes & repeats	Fetal Stomach	stomach
28	chr4:103781600-103781800	Active TSS	Fetal Brain Male	brain
29	chr4:103781600-103782200	ZNF genes & repeats	Liver	Liver
30	chr4:103781600-103782200	ZNF genes & repeats	Fetal Thymus	thymus
31	chr4:103781600-103782400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
32	chr4:103781600-103782400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr4:103781600-103782400	ZNF genes & repeats	Fetal Intestine Small	intestine
34	chr4:103781600-103782400	ZNF genes & repeats	GM12878-XiMat	blood
35	chr4:103781600-103783400	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr4:103781800-103782000	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr4:103781800-103782200	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr4:103781800-103782200	ZNF genes & repeats	Aorta	Aorta
39	chr4:103781800-103782200	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
40	chr4:103781800-103782200	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
41	chr4:103781800-103782400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr4:103781800-103782400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
43	chr4:103781800-103782400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr4:103781800-103782400	ZNF genes & repeats	Fetal Muscle Leg	muscle
45	chr4:103781800-103782600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr4:103781800-103783400	Enhancers	Primary monocytes fromperipheralblood	blood
47	chr4:103781800-103784400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr4:103781800-103788000	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr4:103781800-103789600	Weak transcription	Fetal Brain Male	brain
50	chr4:103782000-103782200	Strong transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links