Variant report

Variant	nsv1003641
Chromosome Location	chr3:21254688-21343596
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:20)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:20 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:21263124..21267489-chr3:21278004..21280410,3	K562	blood:
2	chr3:20381733..20382301-chr3:21331781..21332364,2	MCF-7	breast:
3	chr3:21058438..21059584-chr3:21257830..21258577,6	MCF-7	breast:
4	chr3:21266614..21268748-chr3:21271799..21273765,2	K562	blood:
5	chr3:21274702..21276486-chr9:12852043..12854335,2	MCF-7	breast:
6	chr3:21261396..21264170-chr3:21264811..21266902,2	K562	blood:
7	chr3:21274699..21278536-chr3:21278960..21282448,3	K562	blood:
8	chr3:21266614..21268748-chr3:21271799..21273765,2	K562	blood:
9	chr3:21261396..21264170-chr3:21264811..21266902,2	K562	blood:
10	chr1:38156682..38159494-chr3:21306018..21307587,2	K562	blood:
11	chr3:21259912..21262896-chr3:21264811..21266521,2	K562	blood:
12	chr3:20553366..20553898-chr3:21257700..21258348,2	MCF-7	breast:
13	chr3:21302915..21304733-chr3:21307640..21309847,2	K562	blood:
14	chr3:20971297..20972149-chr3:21257804..21258756,2	MCF-7	breast:
15	chr3:21331844..21332737-chr5:18941538..18942038,2	MCF-7	breast:
16	chr3:20553254..20553852-chr3:21257816..21258713,2	MCF-7	breast:
17	chr3:21259912..21262896-chr3:21264811..21266521,2	K562	blood:
18	chr3:21263124..21267489-chr3:21278004..21280410,3	K562	blood:
19	chr3:21274699..21278536-chr3:21278960..21282448,3	K562	blood:
20	chr3:21302915..21304733-chr3:21307640..21309847,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000116922	chromatin interactions
ENSG00000134690	chromatin interactions

Extended variants
information (count: 1795 )
Associated
traits (count: 74 )

Variant overlapped rSNPs/rCNVs (count:1795 , 50 per page) page: 1 2 3 4 5 6 7 ... 36

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs557647219	chr3:21263248-21263249	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
2	rs551795998	chr3:21263264-21263265	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs560607058	chr3:21263304-21263305	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs141250422	chr3:21263342-21263343	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs116672508	chr3:21263357-21263358	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs78045206	chr3:21263455-21263456	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
7	rs535596941	chr3:21263460-21263461	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
8	rs550467128	chr3:21263541-21263542	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
9	rs568810850	chr3:21263569-21263570	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
10	rs192121276	chr3:21263587-21263588	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs374379748	chr3:21263605-21263606	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
12	rs557317807	chr3:21263610-21263611	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
13	rs139767646	chr3:21263627-21263628	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
14	rs73821037	chr3:21263649-21263650	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
15	rs183946287	chr3:21263756-21263757	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
16	rs557694417	chr3:21263814-21263815	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
17	rs555403835	chr3:21263816-21263817	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
18	rs368342755	chr3:21263825-21263826	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
19	rs574158913	chr3:21263902-21263903	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
20	rs577861482	chr3:21263962-21263963	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
21	rs76617535	chr3:21263980-21263981	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
22	rs578247504	chr3:21263991-21263992	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
23	rs532922967	chr3:21264004-21264005	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
24	rs28470518	chr3:21264016-21264017	Weak transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
25	rs566979542	chr3:21264069-21264070	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
26	rs575870211	chr3:21264236-21264237	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
27	rs143775309	chr3:21264245-21264246	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
28	rs35436551	chr3:21264269-21264270	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
29	rs536132632	chr3:21264286-21264287	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
30	rs549218900	chr3:21264289-21264290	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
31	rs549715607	chr3:21264304-21264305	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
32	rs561387469	chr3:21264306-21264307	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
33	rs187753978	chr3:21264325-21264326	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
34	rs550354228	chr3:21264328-21264329	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
35	rs77362764	chr3:21264358-21264359	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
36	rs147235134	chr3:21264468-21264469	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
37	rs543060218	chr3:21264471-21264472	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
38	rs560081896	chr3:21264522-21264523	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
39	rs116256221	chr3:21264534-21264535	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
40	rs575617509	chr3:21264572-21264573	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
41	rs140719333	chr3:21264622-21264623	Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
42	rs149790450	chr3:21264695-21264696	Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
43	rs145768887	chr3:21264769-21264770	Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
44	rs7627112	chr3:21264770-21264771	Enhancers Bivalent Enhancer	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
45	rs534080490	chr3:21264830-21264831	Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
46	rs578197699	chr3:21264931-21264932	Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
47	rs116562732	chr3:21264936-21264937	Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
48	rs191388909	chr3:21264986-21264987	Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
49	rs572352380	chr3:21265045-21265046	Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
50	rs572966992	chr3:21265046-21265047	Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:74)

Disease	PMID	Source
Medulloblastoma	21979893	CNVD
Esophageal squamous carcinoma	18405350	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Breast cancer	17603634	CNVD
Neuroblastoma	17327916	CNVD
Glioblastoma multiforme	21080181	CNVD
Neuroblastoma	18923191	CNVD
Colorectal cancer	21297112	CNVD
Lynch syndrome	18415027	CNVD
Renal cell carcinoma	18592004	CNVD
Acute myeloid leukemia	20729466	CNVD
Urothelial carcinoma	18382360	CNVD
Melanoma	18172304	CNVD
Cervical cancer	21062161	CNVD
Hirschsprung''s Disease	21712996	CNVD
head and neck squamous cell carcinoma	17671120	CNVD
Insulin resistance	16721378	CNVD
Neuroblastoma	18664255	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Multiple myeloma	17077331	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Ewing''s sarcoma	21437220	CNVD
Neuroblastoma	21484798	CNVD
Non-small cell lung cancer	21044232	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Oral cancer	19627613	CNVD
Renal cell carcinoma	19461508	CNVD
Epithelial cancer	22065749	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Acute myeloid leukemia	16864856	CNVD
Liposarcoma	21253554	CNVD
Basal cell lymphoma	21115979	CNVD
Endometrial cancer	22040021	CNVD
Pancreatic endocrine tumor	20981439	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	17387387	CNVD
Oral cancer	21386901	CNVD
Cutaneous squamous cell carcinomas	19131950	CNVD
Basal cell lymphoma	17053054	CNVD
Esophageal cancer	21851588	CNVD
Uveal melanoma	21693616	CNVD
Retinoblastoma	21504564	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
lymphocytic leukemia	21291569	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Renal cell carcinoma	21668985	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Lung cancer	20668451	CNVD
Breast cancer	20668451	CNVD
Cancer	20668451	CNVD
Ovarian cancer	20668451	CNVD
Pancreas cancer	20668451	CNVD
Prostate cancer	20668451	CNVD
small cell lung cancer	20016488	CNVD
Lung cancer	18438408	CNVD
Intellectual disability	22102821	CNVD
Esophageal cancer	20955586	CNVD
Myeloproliferative neoplasm	20015882	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Myofibroblastic sarcoma	19369631	CNVD
Myelofibrosis	22110671	CNVD
Gastric adenocarcinoma	19115996	CNVD
Squamous cell cancer	20885788	CNVD
Esophageal squamous carcinoma	17470683	CNVD
Breast cancer	17133270	CNVD
Developmental delay	21147756	CNVD
Uveal melanoma	20484589	CNVD
Autism	22495311	CNVD
Cancer	20164919	CNVD
Melanoma	20688739	CNVD
early-passage human iPS cells	21368824	CNVD

Chromatin state (count:129 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:21263200-21264600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:21263600-21264400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:21264000-21265000	Enhancers	Aorta	Aorta
4	chr3:21264600-21265200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:21264600-21266000	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
6	chr3:21265000-21265200	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
7	chr3:21265200-21265600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr3:21265200-21266000	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
9	chr3:21265200-21266400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr3:21265200-21266600	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr3:21265400-21265600	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
12	chr3:21265400-21266200	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr3:21265400-21266600	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr3:21265600-21266000	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr3:21265600-21266400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr3:21266400-21266800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr3:21266800-21267000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr3:21267000-21274600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr3:21267600-21267800	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr3:21267600-21268000	ZNF genes & repeats	Pancreas	Pancrea
21	chr3:21267800-21268000	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr3:21267800-21268800	Enhancers	Fetal Lung	lung
23	chr3:21268800-21271200	Weak transcription	Fetal Lung	lung
24	chr3:21271200-21271800	Enhancers	Fetal Lung	lung
25	chr3:21274600-21274800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr3:21276600-21277400	Enhancers	Fetal Brain Male	brain
27	chr3:21279200-21279600	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr3:21296800-21297200	Active TSS	ES-I3 Cell Line	embryonic stem cell
29	chr3:21297000-21298200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr3:21297400-21297600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr3:21298000-21299400	Enhancers	Brain Germinal Matrix	brain
32	chr3:21298000-21299400	Enhancers	Fetal Heart	heart
33	chr3:21298200-21298400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr3:21298400-21298600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr3:21298400-21298800	Enhancers	Cortex derived primary cultured neurospheres	brain
36	chr3:21298400-21298800	Enhancers	Fetal Muscle Leg	muscle
37	chr3:21298400-21299000	Enhancers	Fetal Lung	lung
38	chr3:21298400-21299800	Enhancers	Colon Smooth Muscle	Colon
39	chr3:21298400-21300200	Enhancers	Stomach Mucosa	stomach
40	chr3:21298600-21299000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr3:21299000-21301200	Weak transcription	Fetal Lung	lung
42	chr3:21299400-21299800	Flanking Active TSS	Fetal Heart	heart
43	chr3:21299400-21301200	Weak transcription	Brain Germinal Matrix	brain
44	chr3:21299800-21300200	Enhancers	Fetal Heart	heart
45	chr3:21300000-21300200	Enhancers	Fetal Kidney	kidney
46	chr3:21300200-21301200	Weak transcription	Fetal Heart	heart
47	chr3:21300200-21301200	Weak transcription	Fetal Kidney	kidney
48	chr3:21301200-21301400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr3:21301200-21301400	Enhancers	Fetal Heart	heart
50	chr3:21301200-21301800	Enhancers	Brain Germinal Matrix	brain

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