Variant report

Variant	nsv877266
Chromosome Location	chr3:103618323-103750905
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:9)
LncRNA
region (count:4)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:103706366..103707164-chr3:187218063..187218925,2	MCF-7	breast:
2	chr3:103663959..103665790-chr3:103668581..103671355,2	K562	blood:
3	chr3:103672576..103675146-chr3:103946117..103948469,2	K562	blood:
4	chr3:103663959..103665790-chr3:103668581..103671355,2	K562	blood:
5	chr3:103709950..103710945-chr3:103925530..103926295,2	MCF-7	breast:
6	chr3:103720043..103721593-chr3:105084716..105086679,2	MCF-7	breast:
7	chr18:59467934..59468577-chr3:103711169..103712107,2	MCF-7	breast:
8	chr16:12926733..12929305-chr3:103655550..103657071,2	MCF-7	breast:
9	chr3:103709966..103710719-chr3:104179327..104180275,3	MCF-7	breast:

(count:4 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ALCAM-3	chr3:103646039-103646199	XLOC_002744
2	lnc-ALCAM-3	chr3:103689452-103689595	NONHSAT090944
3	lnc-ALCAM-3	chr3:103646038-103646199	NONHSAT090944
4	lnc-ALCAM-3	chr3:103730436-103730568	XLOC_002744

No data

Variant related genes	Relation type
ENSG00000170017	chromatin interactions

Extended variants
information (count: 1294 )
Associated
traits (count: 62 )

Variant overlapped rSNPs/rCNVs (count:1294 , 50 per page) page: 1 2 3 4 5 6 7 ... 26

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs563837766	chr3:103620414-103620415	Enhancers	n/a	n/a	Overlapped CNVs	n/a
2	rs534682787	chr3:103620417-103620418	Enhancers	n/a	n/a	Overlapped CNVs	n/a
3	rs568261483	chr3:103620421-103620422	Enhancers	n/a	n/a	Overlapped CNVs	n/a
4	rs535691505	chr3:103620423-103620424	Enhancers	n/a	n/a	Overlapped CNVs	n/a
5	rs553420105	chr3:103620445-103620446	Enhancers	n/a	n/a	Overlapped CNVs	n/a
6	rs557253372	chr3:103620479-103620480	Enhancers	n/a	n/a	Overlapped CNVs	n/a
7	rs7428191	chr3:103620514-103620515	Enhancers	n/a	n/a	Overlapped CNVs	n/a
8	rs149568874	chr3:103620554-103620555	Enhancers	n/a	n/a	Overlapped CNVs	n/a
9	rs542543868	chr3:103620588-103620589	Enhancers	n/a	n/a	Overlapped CNVs	n/a
10	rs557585342	chr3:103620589-103620590	Enhancers	n/a	n/a	Overlapped CNVs	n/a
11	rs575788212	chr3:103620628-103620629	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs78550354	chr3:103620688-103620689	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
13	rs5851370	chr3:103620689-103620690	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
14	rs200023321	chr3:103620702-103620703	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
15	rs76508040	chr3:103620742-103620743	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
16	rs537021364	chr3:103620781-103620782	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
17	rs35565188	chr3:103620791-103620792	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
18	rs186235790	chr3:103620797-103620798	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
19	rs532806452	chr3:103620800-103620801	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs528211214	chr3:103620821-103620822	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
21	rs539806937	chr3:103620849-103620850	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs6437473	chr3:103620850-103620851	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
23	rs190689668	chr3:103620853-103620854	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs577200372	chr3:103620870-103620871	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs6437474	chr3:103620878-103620879	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
26	rs553096824	chr3:103620881-103620882	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs533010284	chr3:103620882-103620883	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs551576486	chr3:103620886-103620887	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
29	rs570823430	chr3:103620915-103620916	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
30	rs535133384	chr3:103620929-103620930	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
31	rs76990519	chr3:103620994-103620995	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
32	rs147233418	chr3:103621018-103621019	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
33	rs563782095	chr3:103621022-103621023	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs531252477	chr3:103621034-103621035	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs376835606	chr3:103621050-103621051	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs557402853	chr3:103621124-103621125	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs72966935	chr3:103621177-103621178	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
38	rs368907199	chr3:103621178-103621179	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs558344265	chr3:103621188-103621189	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
40	rs140701688	chr3:103621221-103621222	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
41	rs182929352	chr3:103621230-103621231	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs561341119	chr3:103621261-103621262	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs528894210	chr3:103621291-103621292	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs188264228	chr3:103621362-103621363	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs79642844	chr3:103621438-103621439	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs60343074	chr3:103621454-103621455	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs201708490	chr3:103621455-103621456	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs568995418	chr3:103621469-103621470	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs562615347	chr3:103621474-103621475	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs9881330	chr3:103621501-103621502	Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:62)

Disease	PMID	Source
Medulloblastoma	21979893	CNVD
Basal cell lymphoma	17053054	CNVD
Esophageal cancer	21851588	CNVD
Uveal melanoma	21693616	CNVD
Glioblastoma multiforme	21080181	CNVD
Retinoblastoma	21504564	CNVD
Renal cell carcinoma	21668985	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Intellectual disability	22102821	CNVD
Breast cancer	17603634	CNVD
Uveal melanoma	20484589	CNVD
Autism	22495311	CNVD
Lung cancer	18438408	CNVD
Hirschsprung''s Disease	21712996	CNVD
Hepatocellular carcinoma	16750200	CNVD
Cancer	21183584	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Bipolar disorder	20877625	CNVD
Bipolar disorder	21956041	CNVD
Bipolar disorder	22241247	CNVD
Biliary cancer	18923514	CNVD
Prostate cancer	21965145	CNVD
Cancer	21129771	CNVD
Congenital diaphragmatic hernia	21085971	CNVD
Cervical cancer	21062161	CNVD
Squamous cell cancer	20885788	CNVD
Melanoma	18172304	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Bipolar disorder	18458673	CNVD
Breast cancer	22032731	CNVD
Neurodevelopmental disorder	22521361	CNVD
head and neck squamous cell carcinoma	17671120	CNVD
Breast cancer	16461572	CNVD
Neuroblastoma	17533364	CNVD
microdeletion syndrome	22180640	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
Acute lymphoblastic leukemia	21339820	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
small cell lung cancer	20016488	CNVD
Ductal carcinoma	22052326	CNVD
Breast cancer	16608533	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Myelofibrosis	22110671	CNVD
Renal cell carcinoma	18765545	CNVD
Breast cancer	21364760	CNVD
Breast cancer	22522925	CNVD
Developmental delay	22180640	CNVD
Stenocardia	21860640	CNVD
Vasospasm	21860640	CNVD
Non-syndromic sensorineural hearing loss	22037309	CNVD
Non-syndromic sensorineural hearing loss	18451855	CNVD

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:103620400-103620600	Enhancers	Pancreas	Pancrea
2	chr3:103620600-103621600	Weak transcription	Pancreas	Pancrea
3	chr3:103621600-103621800	Enhancers	Pancreas	Pancrea
4	chr3:103625800-103626200	Enhancers	HepG2	liver
5	chr3:103637800-103638800	Enhancers	Liver	Liver
6	chr3:103665400-103665800	Enhancers	HepG2	liver
7	chr3:103665800-103666600	Flanking Active TSS	HepG2	liver
8	chr3:103666200-103666600	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr3:103672600-103673200	Enhancers	HepG2	liver
10	chr3:103672800-103673200	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr3:103673200-103679600	Weak transcription	HepG2	liver
12	chr3:103674600-103675000	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr3:103679600-103683600	Enhancers	HepG2	liver
14	chr3:103679800-103680200	Enhancers	Liver	Liver
15	chr3:103681200-103681800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr3:103681600-103682600	Enhancers	iPS-15b Cell Line	embryonic stem cell
17	chr3:103682600-103682800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr3:103684600-103684800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr3:103684800-103685000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr3:103685000-103687000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr3:103694200-103697200	Enhancers	Liver	Liver
22	chr3:103694600-103695400	Enhancers	HepG2	liver
23	chr3:103695400-103696200	Active TSS	HepG2	liver
24	chr3:103695800-103696800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:103696200-103696400	Flanking Active TSS	HepG2	liver
26	chr3:103696200-103697000	Enhancers	Fetal Intestine Small	intestine
27	chr3:103696200-103697200	Enhancers	Fetal Intestine Large	intestine
28	chr3:103696400-103698400	Enhancers	HepG2	liver
29	chr3:103704400-103704800	Enhancers	iPS-20b Cell Line	embryonic stem cell
30	chr3:103704600-103705000	Enhancers	HepG2	liver
31	chr3:103705000-103710000	Weak transcription	HepG2	liver
32	chr3:103707800-103708200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr3:103710200-103710400	Enhancers	HepG2	liver
34	chr3:103710600-103711000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr3:103724000-103724400	Enhancers	HUES64 Cell Line	embryonic stem cell
36	chr3:103737000-103737600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr3:103749200-103750400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr3:103749600-103749800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr3:103749600-103751200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr3:103749800-103751400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr3:103750000-103750200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr3:103750400-103750800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr3:103750400-103750800	Enhancers	Placenta Amnion	Placenta Amnion
44	chr3:103750400-103751000	Enhancers	H9 Cell Line	embryonic stem cell
45	chr3:103750400-103751600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr3:103750600-103751000	Enhancers	H1 Cell Line	embryonic stem cell
47	chr3:103750600-103751200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr3:103750600-103751400	Enhancers	ES-I3 Cell Line	embryonic stem cell
49	chr3:103750600-103751400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr3:103750600-103751400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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