Variant report

Variant	esv3584505
Chromosome Location	chr3:159606945-159648615
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:21)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:1)

No data

(count:21 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:159609810..159612666-chr3:159615841..159617422,2	MCF-7	breast:
2	chr3:159646846..159647825-chr3:159720823..159721797,7	MCF-7	breast:
3	chr3:159614178..159616312-chr3:159624532..159626099,2	MCF-7	breast:
4	chr3:159613166..159615105-chr3:159617900..159620384,2	K562	blood:
5	chr3:159628184..159630550-chr3:159635946..159637758,2	MCF-7	breast:
6	chr3:159628184..159630550-chr3:159635946..159637758,2	MCF-7	breast:
7	chr3:159614968..159617414-chr3:159619810..159621336,2	MCF-7	breast:
8	chr3:159614178..159616312-chr3:159624532..159626099,2	MCF-7	breast:
9	chr3:159609810..159612666-chr3:159615841..159617422,2	MCF-7	breast:
10	chr3:159611466..159613848-chr3:159622736..159624341,2	MCF-7	breast:
11	chr3:159613166..159615105-chr3:159617900..159620384,2	K562	blood:
12	chr3:159614968..159617414-chr3:159619810..159621336,2	MCF-7	breast:
13	chr3:159645783..159648230-chr3:159658331..159660835,2	MCF-7	breast:
14	chr3:159647179..159649590-chr3:159704881..159706621,2	MCF-7	breast:
15	chr3:159647290..159647866-chr3:160203884..160204504,2	K562	blood:
16	chr3:159636755..159638986-chr3:159669596..159672189,2	MCF-7	breast:
17	chr3:159646129..159648856-chr3:159654448..159656176,2	MCF-7	breast:
18	chr3:159647281..159647881-chr3:159724273..159724824,2	MCF-7	breast:
19	chr3:159647308..159647846-chr3:159700232..159700835,2	MCF-7	breast:
20	chr3:159611466..159613848-chr3:159622736..159624341,2	MCF-7	breast:
21	chr3:159647093..159647612-chr3:159724029..159724614,3	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RP11-432B6.3.1-1	chr3:159631189-159632263	ENSG00000244040
2	lnc-RP11-432B6.3.1-1	chr3:159631190-159632263	NR_108088

No data

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

No.	miRNA target gene	miRNA name	Chromosome Location	mirBase accession
1	SCHIP1	hsa-miR-98-5p	chr3:159615026-159615047

Variant related genes	Relation type
ENSG00000168811	chromatin interactions
IDH1	miRNA target sites

Extended variants
information (count: 1550 )
Associated
traits (count: 57 )

Variant overlapped rSNPs/rCNVs (count:1550 , 50 per page) page: 1 2 3 4 5 6 7 ... 31

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs562049224	chr3:159606960-159606961	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
2	rs187637653	chr3:159607025-159607026	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
3	rs370628175	chr3:159607027-159607028	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
4	rs550934600	chr3:159607082-159607083	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
5	rs562985333	chr3:159607105-159607106	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
6	rs557325099	chr3:159607115-159607116	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
7	rs533294287	chr3:159607212-159607213	Weak transcription Strong transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
8	rs551873619	chr3:159607245-159607246	Weak transcription Strong transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
9	rs370881875	chr3:159607297-159607298	Weak transcription Strong transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
10	rs192665157	chr3:159607331-159607332	Weak transcription Strong transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
11	rs534192676	chr3:159607345-159607346	Weak transcription Strong transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
12	rs549250421	chr3:159607362-159607363	Weak transcription Strong transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
13	rs375355869	chr3:159607393-159607394	Weak transcription Strong transcription Enhancers Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
14	rs185663616	chr3:159607423-159607424	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
15	rs374269425	chr3:159607447-159607448	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
16	rs565036476	chr3:159607453-159607454	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
17	rs538026827	chr3:159607474-159607475	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
18	rs190621081	chr3:159607499-159607500	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
19	rs33056	chr3:159607514-159607515	Weak transcription Strong transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
20	rs538323219	chr3:159607569-159607570	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
21	rs148740690	chr3:159607570-159607571	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
22	rs192255218	chr3:159607608-159607609	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
23	rs184374521	chr3:159607613-159607614	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
24	rs34519700	chr3:159607635-159607636	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
25	rs62270408	chr3:159607640-159607641	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
26	rs562035312	chr3:159607652-159607653	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
27	rs34879967	chr3:159607654-159607655	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
28	rs574030048	chr3:159607681-159607682	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
29	rs142276148	chr3:159607697-159607698	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
30	rs370663059	chr3:159607700-159607701	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
31	rs367591165	chr3:159607713-159607714	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
32	rs373885745	chr3:159607737-159607738	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
33	rs188759226	chr3:159607753-159607754	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
34	rs551066741	chr3:159607776-159607777	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
35	rs71312277	chr3:159607787-159607788	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
36	rs562707526	chr3:159607809-159607810	Weak transcription Genic enhancers Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
37	rs530132099	chr3:159607815-159607816	Weak transcription Genic enhancers Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
38	rs560569693	chr3:159607826-159607827	Weak transcription Genic enhancers Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
39	rs527682386	chr3:159607841-159607842	Weak transcription Genic enhancers Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
40	rs76375735	chr3:159607884-159607885	Weak transcription Genic enhancers Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
41	rs549437454	chr3:159607901-159607902	Weak transcription Genic enhancers Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
42	rs193050080	chr3:159607903-159607904	Weak transcription Genic enhancers Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
43	rs567549609	chr3:159607905-159607906	Weak transcription Genic enhancers Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
44	rs531532669	chr3:159608012-159608013	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
45	rs550066659	chr3:159608024-159608025	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
46	rs12630257	chr3:159608036-159608037	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
47	rs181269544	chr3:159608039-159608040	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
48	rs553584198	chr3:159608053-159608054	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
49	rs33057	chr3:159608152-159608153	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
50	rs368523105	chr3:159608155-159608156	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:57)

Disease	PMID	Source
Basal cell lymphoma	17053054	CNVD
Esophageal cancer	21851588	CNVD
Uveal melanoma	21693616	CNVD
Glioblastoma multiforme	21080181	CNVD
Retinoblastoma	21504564	CNVD
Medulloblastoma	21979893	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Intellectual disability	22102821	CNVD
Autism	22495311	CNVD
Lung cancer	18438408	CNVD
Squamous cell cancer	20885788	CNVD
Melanoma	18172304	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Breast cancer	22032731	CNVD
Breast cancer	16461572	CNVD
Neuroblastoma	17533364	CNVD
Cervical Cancer	21857958	CNVD
Melanoma	21693616	CNVD
Lung cancer	21426551	CNVD
Cancer	21637783	CNVD
Cervical cancer	21063398	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Liposarcoma	21253554	CNVD
Oral cancer	21386901	CNVD
Renal cell carcinoma	19461508	CNVD
Cancer	22065749	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Basal cell lymphoma	21115979	CNVD
head and neck squamous cell carcinoma	17671120	CNVD
Hepatocellular carcinoma	16750200	CNVD
Esophageal squamous carcinoma	18350619	CNVD
Myelodysplastic syndrome	21251322	CNVD
small cell lung cancer	20016488	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Basal cell lymphoma	17170743	CNVD
Breast cancer	16608533	CNVD
Myofibroblastic sarcoma	19369631	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Acute myeloid leukemia	20729466	CNVD
Non-small cell lung cancer	19010865	CNVD
abnormal development	18461090	CNVD
Prostate cancer	18632612	CNVD
Ovarian clear cell carcinoma	21343371	CNVD
Colorectal cancer	16272173	CNVD
Prostate cancer	16547154	CNVD
Breast cancer	21364760	CNVD
Gastrointestinal stromal cancer	20818650	CNVD
Breast cancer	21509527	CNVD
Effusion lymphoma	18079361	CNVD
Prostate cancer	16573809	CNVD
Breast cancer	21785460	CNVD
Pancreatic ductal adenocarcinoma	19077451	CNVD
Breast cancer	22522925	CNVD
Pancreatic cancer	17952125	CNVD
Cancer	17440070	CNVD

Chromatin state (count:1078 , 50 per page) page: 1 2 3 4 5 6 7 ... 22

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159590800-159617600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:159596200-159613200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:159599800-159609400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr3:159599800-159620400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:159600000-159610200	Weak transcription	Esophagus	oesophagus
6	chr3:159600000-159610200	Weak transcription	A549	lung
7	chr3:159600800-159609400	Weak transcription	Fetal Brain Female	brain
8	chr3:159601000-159610200	Weak transcription	Placenta	Placenta
9	chr3:159601200-159607200	Enhancers	Brain Hippocampus Middle	brain
10	chr3:159601200-159609800	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr3:159601200-159609800	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr3:159601200-159609800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr3:159601200-159610000	Weak transcription	Spleen	Spleen
14	chr3:159601200-159610200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:159601200-159615200	Weak transcription	Fetal Intestine Small	intestine
16	chr3:159601400-159609400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr3:159601400-159609800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr3:159601400-159609800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:159601400-159610400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr3:159601400-159611600	Weak transcription	Lung	lung
21	chr3:159601400-159613800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr3:159601400-159615200	Weak transcription	Ovary	ovary
23	chr3:159601400-159618600	Weak transcription	Fetal Brain Male	brain
24	chr3:159601400-159620400	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr3:159601600-159620400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr3:159603000-159609400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr3:159603000-159609600	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr3:159603000-159609800	Weak transcription	NHDF-Ad	bronchial
29	chr3:159603000-159617000	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr3:159603200-159607400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr3:159603400-159607200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr3:159603400-159607400	Strong transcription	Fetal Muscle Trunk	muscle
33	chr3:159603400-159608800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr3:159603400-159612600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr3:159603400-159616200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr3:159603600-159610200	Weak transcription	Brain Germinal Matrix	brain
37	chr3:159603800-159609200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr3:159603800-159615200	Weak transcription	Fetal Intestine Large	intestine
39	chr3:159604000-159607400	Strong transcription	Fetal Muscle Leg	muscle
40	chr3:159604000-159607400	Strong transcription	HSMMtube	muscle
41	chr3:159604000-159607600	Strong transcription	HSMM	muscle
42	chr3:159604200-159607600	Strong transcription	Skeletal Muscle Female	skeletal muscle
43	chr3:159604400-159607400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
44	chr3:159604400-159607600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr3:159604400-159610200	Weak transcription	Liver	Liver
46	chr3:159604600-159607400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr3:159605000-159607000	Strong transcription	NH-A	brain
48	chr3:159605000-159607200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr3:159605200-159607600	Strong transcription	Primary hematopoietic stem cells	blood
50	chr3:159605400-159607200	Genic enhancers	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links