Variant report

Variant	nsv883385
Chromosome Location	chr6:1869592-1915828
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:17)
LncRNA
region (count:60)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:17 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:1893216..1895870-chr6:1897285..1899194,2	MCF-7	breast:
2	chr6:1876778..1878814-chr6:1880634..1882553,2	K562	blood:
3	chr6:1868113..1870293-chr6:1878428..1880757,2	MCF-7	breast:
4	chr6:1892981..1894808-chr6:1898634..1901101,2	K562	blood:
5	chr6:1879945..1882331-chr6:1886412..1889066,2	K562	blood:
6	chr6:1892981..1894808-chr6:1898634..1901101,2	K562	blood:
7	chr6:1608029..1610545-chr6:1915416..1919377,4	MCF-7	breast:
8	chr6:1901619..1903388-chr6:1908460..1910593,2	MCF-7	breast:
9	chr6:1893216..1895870-chr6:1897285..1899194,2	MCF-7	breast:
10	chr6:1868113..1870293-chr6:1878428..1880757,2	MCF-7	breast:
11	chr6:1876778..1878814-chr6:1880634..1882553,2	K562	blood:
12	chr6:1879945..1882331-chr6:1886412..1889066,2	K562	blood:
13	chr6:1909308..1911195-chr6:1919277..1921722,2	K562	blood:
14	chr6:1901619..1903388-chr6:1908460..1910593,2	MCF-7	breast:
15	chr6:1687705..1689318-chr6:1909899..1912443,2	K562	blood:
16	chr6:1608691..1612262-chr6:1889207..1891694,3	MCF-7	breast:
17	chr6:1894148..1894655-chr6:2354034..2354766,2	K562	blood:

(count:60 , 50 per page) page: 1 2

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FOXC1-9	chr6:1907481-1908235	NONHSAT106557
2	lnc-FOXC1-9	chr6:1888251-1888407	NONHSAT106556
3	lnc-FOXC1-9	chr6:1903590-1903661	NONHSAT106555
4	lnc-FOXC1-9	chr6:1903590-1903661	NONHSAT106557
5	lnc-FOXC1-9	chr6:1902860-1902931	NONHSAT106553
6	lnc-FOXC1-9	chr6:1906579-1906658	NONHSAT106554
7	lnc-FOXC1-9	chr6:1902860-1902931	NONHSAT106554
8	lnc-FOXC1-9	chr6:1904943-1906085	NONHSAT106556
9	lnc-FOXC1-9	chr6:1907309-1907388	NONHSAT106557
10	lnc-FOXC1-9	chr6:1906751-1907505	NONHSAT106554
11	lnc-FOXC1-9	chr6:1889266-1889326	NONHSAT106557
12	lnc-FOXC1-9	chr6:1889266-1889326	NONHSAT106555
13	lnc-FOXC1-9	chr6:1889013-1889114	NONHSAT106554
14	lnc-FOXC1-9	chr6:1904182-1904425	NONHSAT106556
15	lnc-FOXC1-9	chr6:1888716-1888829	NONHSAT106553
16	lnc-FOXC1-9	chr6:1889013-1889114	NONHSAT106553
17	lnc-FOXC1-9	chr6:1888144-1888204	NONHSAT106554
18	lnc-FOXC1-9	chr6:1889744-1889845	NONHSAT106555
19	lnc-FOXC1-9	chr6:1901791-1901836	NONHSAT106555
20	lnc-FOXC1-9	chr6:1888320-1888411	NONHSAT106554
21	lnc-FOXC1-9	chr6:1888320-1888411	NONHSAT106553
22	lnc-FOXC1-9	chr6:1904182-1906085	NONHSAT106555
23	lnc-FOXC1-9	chr6:1901949-1902017	NONHSAT106557
24	lnc-FOXC1-9	chr6:1903452-1905355	NONHSAT106553
25	lnc-FOXC1-9	chr6:1889744-1889845	NONHSAT106556
26	lnc-FOXC1-9	chr6:1901061-1901106	NONHSAT106554
27	lnc-FOXC1-9	chr6:1889051-1889142	NONHSAT106556
28	lnc-FOXC1-9	chr6:1889051-1889142	NONHSAT106555
29	lnc-FOXC1-9	chr6:1903452-1903695	NONHSAT106552
30	lnc-FOXC1-9	chr6:1889051-1889142	NONHSAT106557
31	lnc-FOXC1-9	chr6:1887520-1887676	NONHSAT106554
32	lnc-FOXC1-9	chr6:1902860-1902931	NONHSAT106552
33	lnc-FOXC1-9	chr6:1888251-1888407	NONHSAT106555
34	lnc-FOXC1-9	chr6:1903590-1903661	NONHSAT106556
35	lnc-FOXC1-9	chr6:1888144-1888204	NONHSAT106553
36	lnc-FOXC1-9	chr6:1901791-1901836	NONHSAT106557
37	lnc-FOXC1-9	chr6:1888875-1888935	NONHSAT106556
38	lnc-FOXC1-9	chr6:1901061-1901106	NONHSAT106552
39	lnc-FOXC1-9	chr6:1888875-1888935	NONHSAT106557
40	lnc-FOXC1-9	chr6:1889447-1889560	NONHSAT106555
41	lnc-FOXC1-9	chr6:1888716-1888829	NONHSAT106554
42	lnc-FOXC1-9	chr6:1889744-1889845	NONHSAT106557
43	lnc-FOXC1-9	chr6:1901791-1901836	NONHSAT106556
44	lnc-FOXC1-9	chr6:1901219-1901287	NONHSAT106554
45	lnc-FOXC1-9	chr6:1889013-1889114	NONHSAT106552
46	lnc-FOXC1-9	chr6:1888251-1888407	NONHSAT106557
47	lnc-FOXC1-9	chr6:1887520-1887676	NONHSAT106552
48	lnc-FOXC1-9	chr6:1888535-1888595	NONHSAT106552
49	lnc-FOXC1-9	chr6:1888320-1888411	NONHSAT106552
50	lnc-FOXC1-9	chr6:1888716-1888829	NONHSAT106552

No data

Variant related genes	Relation type
ENSG00000054598	chromatin interactions

Extended variants
information (count: 1756 )
Associated
traits (count: 72 )

Variant overlapped rSNPs/rCNVs (count:1756 , 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	rs4142186	chr6:1869592-1869593	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
2	rs545379680	chr6:1869603-1869604	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
3	rs139192093	chr6:1869609-1869610	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
4	rs192696156	chr6:1869644-1869645	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
5	rs531049185	chr6:1869647-1869648	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
6	rs143620448	chr6:1869649-1869650	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
7	rs567447449	chr6:1869664-1869665	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
8	rs530157995	chr6:1869731-1869732	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
9	rs114991147	chr6:1869762-1869763	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
10	rs371181940	chr6:1869812-1869813	Enhancers Weak transcription Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
11	rs115996215	chr6:1869816-1869817	Enhancers Weak transcription Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
12	rs550789097	chr6:1869894-1869895	Enhancers Weak transcription Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
13	rs567169715	chr6:1869909-1869910	Enhancers Weak transcription Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
14	rs374531257	chr6:1869924-1869925	Enhancers Weak transcription Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
15	rs551909347	chr6:1869945-1869946	Enhancers Weak transcription Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
16	rs567496715	chr6:1869996-1869997	Enhancers Weak transcription Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
17	rs539346542	chr6:1869997-1869998	Enhancers Weak transcription Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
18	rs11961900	chr6:1870019-1870020	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
19	rs536337649	chr6:1870036-1870037	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs536883864	chr6:1870040-1870041	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
21	rs557171563	chr6:1870062-1870063	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs115722618	chr6:1870067-1870068	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs185045868	chr6:1870133-1870134	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs80351530	chr6:1870167-1870168	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs376312085	chr6:1870207-1870208	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs572796818	chr6:1870220-1870221	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs147180006	chr6:1870287-1870288	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs11967004	chr6:1870289-1870290	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
29	rs575870082	chr6:1870298-1870299	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
30	rs541876242	chr6:1870311-1870312	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
31	rs566464539	chr6:1870312-1870313	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
32	rs538584074	chr6:1870342-1870343	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
33	rs3778542	chr6:1870348-1870349	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs73417944	chr6:1870459-1870460	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
35	rs114069889	chr6:1870481-1870482	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs374028535	chr6:1870495-1870496	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs74484800	chr6:1870520-1870521	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs148669636	chr6:1870530-1870531	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs56338911	chr6:1870599-1870600	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
40	rs188309822	chr6:1870609-1870610	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
41	rs192212237	chr6:1870619-1870620	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs537367330	chr6:1870648-1870649	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs550851960	chr6:1870708-1870709	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs567472174	chr6:1870712-1870713	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs555203192	chr6:1870734-1870735	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs184407074	chr6:1870738-1870739	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs147365697	chr6:1870793-1870794	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs150806439	chr6:1870808-1870809	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs62388425	chr6:1870819-1870820	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs572875978	chr6:1870853-1870854	Enhancers Weak transcription Bivalent Enhancer Strong transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:72)

Disease	PMID	Source
Chronic lymphocytic leukemia	21546498	CNVD
Myelofibrosis	22110671	CNVD
Barrett''s adenocarcinoma	18663352	CNVD
Prader-willi syndrome	20588305	CNVD
Multiple myeloma	16616336	CNVD
Acute lymphoblastic leukemia	21098271	CNVD
Developmental delay	19490664	CNVD
Cancer	21183584	CNVD
Multiple Epiphyseal Dysplasia	20877625	CNVD
Congenital diaphragmatic hernia	21085971	CNVD
Glaucoma	18694899	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Prostate cancer	16573809	CNVD
Acute lymphoblastic leukemia	21980252	CNVD
Breast cancer	17603634	CNVD
Cancer	20164920	CNVD
Colorectal cancer	21297112	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Follicular lymphoma	20505157	CNVD
Glioblastoma multiforme	21080181	CNVD
Ewing''s sarcoma	21437220	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Leukemia	21518781	CNVD
Cancer	21637783	CNVD
Facial dysmorphism	22105932	CNVD
Medulloblastoma	21979893	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Diffuse large b-cell lymphoma	18287131	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	19960244	CNVD
Hepatocellular carcinoma	22174799	CNVD
Endometrial cancer	22040021	CNVD
Acute myeloid leukemia	16864856	CNVD
Breast cancer	21264507	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Cancer	16751803	CNVD
Bladder cancer	19088036	CNVD
Wilms tumour	21544195	CNVD
Uveal melanoma	21693616	CNVD
Biliary cancer	19435499	CNVD
Malaria	21533027	CNVD
Retinoblastoma	19183342	CNVD
Acute myeloid leukemia	20729466	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Breast cancer	20668451	CNVD
Cancer	20668451	CNVD
Lung cancer	20668451	CNVD
Ovarian cancer	20668451	CNVD
Pancreas cancer	20668451	CNVD
Prostate cancer	20668451	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Prostate cancer	18632612	CNVD
Myelodysplastic syndrome	21251322	CNVD
low-grade B-cell lymphoma tumor	18367492	CNVD
Breast cancer	21858162	CNVD
Breast cancer	21364760	CNVD
Lung cancer	18438408	CNVD
Bladder cancer	21909424	CNVD
Multiple myeloma	17550852	CNVD
Ewing''s sarcoma	17952124	CNVD
Cancer	20164919	CNVD
Gastric cancer	16891809	CNVD
Ovarian cancer	21781307	CNVD
small cell lung cancer	20016488	CNVD
Autism	22495311	CNVD
Autism	21448237	CNVD
Lung adenocarcinoma	21935476	CNVD
Breast cancer	22522925	CNVD
Pancreatic cancer	17952125	CNVD
Non-small cell lung cancer	16651412	CNVD

Chromatin state (count:699 , 50 per page) page: 1 2 3 4 5 6 7 ... 14

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1842800-1872400	Weak transcription	Gastric	stomach
2	chr6:1851200-1895600	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr6:1851400-1872200	Weak transcription	Pancreas	Pancrea
4	chr6:1851400-1909600	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:1856800-1869600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr6:1857600-1877200	Weak transcription	Primary T cells from cord blood	blood
7	chr6:1861400-1870400	Weak transcription	Colonic Mucosa	Colon
8	chr6:1861600-1870000	Weak transcription	Aorta	Aorta
9	chr6:1865200-1869600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr6:1865200-1884600	Weak transcription	Small Intestine	intestine
11	chr6:1865400-1869600	Weak transcription	Ovary	ovary
12	chr6:1865400-1870600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr6:1865400-1871000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr6:1865800-1870200	Weak transcription	Brain Anterior Caudate	brain
15	chr6:1865800-1872200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr6:1866000-1869600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:1866400-1870000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr6:1866400-1870600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr6:1866400-1871600	Weak transcription	Brain Hippocampus Middle	brain
20	chr6:1866600-1870600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:1866600-1872000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr6:1866800-1871200	Weak transcription	Fetal Kidney	kidney
23	chr6:1867000-1872000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr6:1867000-1873800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr6:1867200-1871800	Weak transcription	Brain Cingulate Gyrus	brain
26	chr6:1867200-1872200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr6:1867400-1870000	Weak transcription	HepG2	liver
28	chr6:1868000-1873600	Weak transcription	Stomach Mucosa	stomach
29	chr6:1868600-1870800	Enhancers	Primary B cells from peripheral blood	blood
30	chr6:1868800-1869800	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr6:1868800-1869800	Flanking Active TSS	GM12878-XiMat	blood
32	chr6:1869200-1871400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr6:1869200-1872400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
34	chr6:1869200-1874000	Enhancers	iPS-20b Cell Line	embryonic stem cell
35	chr6:1869200-1874200	Enhancers	HUES64 Cell Line	embryonic stem cell
36	chr6:1869200-1874200	Enhancers	iPS-15b Cell Line	embryonic stem cell
37	chr6:1869400-1871400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
38	chr6:1869400-1873400	Enhancers	H1 Cell Line	embryonic stem cell
39	chr6:1869400-1873800	Enhancers	ES-I3 Cell Line	embryonic stem cell
40	chr6:1869400-1873800	Enhancers	iPS-18 Cell Line	embryonic stem cell
41	chr6:1869400-1874200	Enhancers	HUES48 Cell Line	embryonic stem cell
42	chr6:1869400-1874400	Enhancers	HUES6 Cell Line	embryonic stem cell
43	chr6:1869600-1869800	Enhancers	Ovary	ovary
44	chr6:1869600-1870200	Enhancers	Primary B cells from cord blood	blood
45	chr6:1869600-1871400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr6:1869600-1871600	Bivalent Enhancer	Fetal Muscle Leg	muscle
47	chr6:1869600-1873800	Enhancers	H9 Cell Line	embryonic stem cell
48	chr6:1869800-1870200	Weak transcription	Ovary	ovary
49	chr6:1869800-1870800	Enhancers	GM12878-XiMat	blood
50	chr6:1870000-1870200	Enhancers	Psoas Muscle	Psoas

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