Variant report

Variant	nsv883489
Chromosome Location	chr6:25789061-25821770
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:28)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:28 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:25786996..25789369-chr6:26029136..26033037,3	K562	blood:
2	chr6:25787936..25790848-chr6:25942188..25944677,2	K562	blood:
3	chr6:25793763..25795606-chr6:26123186..26125052,2	K562	blood:
4	chr6:25788441..25789483-chr6:25942366..25943406,8	MCF-7	breast:
5	chr6:25788477..25789236-chr6:25890713..25891324,2	MCF-7	breast:
6	chr6:25796265..25799147-chr6:25799670..25802231,2	K562	blood:
7	chr6:25787422..25789346-chr6:25991873..25993679,2	K562	blood:
8	chr6:25788140..25789474-chr6:25890294..25891442,10	MCF-7	breast:
9	chr6:25788309..25789452-chr6:26002965..26003984,3	MCF-7	breast:
10	chr6:25819751..25821917-chr6:25839789..25841891,2	MCF-7	breast:
11	chr6:25788516..25789431-chr6:25890332..25891380,4	K562	blood:
12	chr6:25788385..25789459-chr6:25942332..25943408,5	K562	blood:
13	chr6:25788525..25789371-chr6:25992441..25993378,2	K562	blood:
14	chr6:25800380..25801917-chr6:25822307..25825107,2	K562	blood:
15	chr6:25815670..25817805-chr6:26023772..26026726,2	K562	blood:
16	chr6:25803637..25805229-chr6:26026116..26027640,2	K562	blood:
17	chr6:25787767..25791136-chr6:25887624..25890567,3	K562	blood:
18	chr6:25811849..25814907-chr6:25817436..25821496,3	K562	blood:
19	chr6:25811849..25814907-chr6:25817436..25821496,3	K562	blood:
20	chr6:25798720..25801488-chr6:26028293..26029999,2	K562	blood:
21	chr6:25819433..25821975-chr6:25826132..25827962,2	K562	blood:
22	chr6:25813545..25815499-chr6:25823714..25826579,2	K562	blood:
23	chr6:25787874..25789586-chr6:25991513..25994332,3	MCF-7	breast:
24	chr6:25788519..25789097-chrX:98135948..98136448,2	MCF-7	breast:
25	chr6:25782886..25784532-chr6:25787589..25789523,2	MCF-7	breast:
26	chr6:25784951..25787337-chr6:25802138..25804182,2	K562	blood:
27	chr6:25796265..25799147-chr6:25799670..25802231,2	K562	blood:
28	chr6:25800380..25802142-chr6:25822216..25823807,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLC17A4-1	chr6:25798604-25798901	NONHSAT108189
2	lnc-SLC17A3-1	chr6:25818265-25818644	NONHSAT108190

No data

Variant related genes	Relation type
ENSG00000124693	chromatin interactions
ENSG00000180573	chromatin interactions
ENSG00000272462	chromatin interactions
ENSG00000124529	chromatin interactions
ENSG00000180596	chromatin interactions

Extended variants
information (count: 1201 )
Associated
traits (count: 102 )

Variant overlapped rSNPs/rCNVs (count:1201 , 50 per page) page: 1 2 3 4 5 6 7 ... 25

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs9393670	chr6:25789061-25789062	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
2	rs147408637	chr6:25789084-25789085	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
3	rs538705670	chr6:25789129-25789130	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
4	rs1937129	chr6:25789132-25789133	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
5	rs9393671	chr6:25789189-25789190	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
6	rs139537655	chr6:25789199-25789200	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
7	rs141469658	chr6:25789200-25789201	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
8	rs146664560	chr6:25789207-25789208	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
9	rs70977229	chr6:25789226-25789227	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
10	rs185056267	chr6:25789227-25789228	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
11	rs571657536	chr6:25789265-25789266	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
12	rs13211020	chr6:25789283-25789284	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
13	rs180764916	chr6:25789364-25789365	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
14	rs10214468	chr6:25789390-25789391	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
15	rs186705769	chr6:25789397-25789398	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
16	rs558059899	chr6:25789428-25789429	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
17	rs138072745	chr6:25789498-25789499	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
18	rs537751173	chr6:25789504-25789505	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
19	rs553017534	chr6:25789543-25789544	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
20	rs369908899	chr6:25789584-25789585	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
21	rs190207338	chr6:25789659-25789660	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs544719258	chr6:25789669-25789670	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs564597469	chr6:25789672-25789673	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs530522259	chr6:25789764-25789765	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs544370640	chr6:25789889-25789890	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs573142906	chr6:25789894-25789895	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs542301672	chr6:25789941-25789942	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs561131262	chr6:25790053-25790054	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
29	rs530260492	chr6:25790105-25790106	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
30	rs183192630	chr6:25790146-25790147	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
31	rs540434057	chr6:25790149-25790150	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
32	rs567092097	chr6:25790199-25790200	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
33	rs555225619	chr6:25790276-25790277	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs532500116	chr6:25790288-25790289	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs573729043	chr6:25790298-25790299	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs143525810	chr6:25790313-25790314	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs115188359	chr6:25790314-25790315	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs28360585	chr6:25790356-25790357	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
39	rs187522322	chr6:25790363-25790364	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
40	rs13200921	chr6:25790378-25790379	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
41	rs201240678	chr6:25790388-25790389	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs553222880	chr6:25790436-25790437	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs573063427	chr6:25790444-25790445	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs544557218	chr6:25790461-25790462	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs558150519	chr6:25790492-25790493	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs72843528	chr6:25790493-25790494	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
47	rs543882521	chr6:25790498-25790499	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs544575902	chr6:25790505-25790506	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs557294770	chr6:25790537-25790538	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs77883970	chr6:25790551-25790552	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:102)

Disease	PMID	Source
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
Acute lymphoblastic leukemia	20435627	CNVD
Prostate cancer	18632612	CNVD
Breast cancer	21858162	CNVD
Lung cancer	18438408	CNVD
Multiple myeloma	17550852	CNVD
Ewing''s sarcoma	17952124	CNVD
Gastric cancer	16891809	CNVD
Ovarian cancer	21781307	CNVD
Autism	21448237	CNVD
Cancer	20164919	CNVD
Melanoma	18172304	CNVD
Breast cancer	22844521	CNVD
HIV/AIDS	22844521	CNVD
Ovarian cancer	22844521	CNVD
Prostate cancer	22844521	CNVD
Psoriasis	22844521	CNVD
Rheumatoid arthritis	22844521	CNVD
Sclerosis systemic	22844521	CNVD
Systemic lupus erythematosus	22844521	CNVD
Breast cancer	22522925	CNVD
Breast cancer	21552322	CNVD
Immune disease	21076436	CNVD
Autoimmune disease	19135723	CNVD
Systemic lupus erythematosus	17953491	CNVD
Recurrent Infections	22737222	CNVD
Systemic lupus erythematosus	21904924	CNVD
Ependymoma	19289631	CNVD
Gestational infection	22844521	CNVD
Head circumference	22844521	CNVD
Infertility	22844521	CNVD
Recurrent birth weight diabetes	22844521	CNVD
Obesity	22844521	CNVD
Recurrent pregnancy loss	22844521	CNVD
Intellectual disability	21811512	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Congenital anomalies of the kidney and urinary tract	18694510	CNVD
Nasopharyngeal cancer	22815911	CNVD
Hepatocellular carcinoma	16750200	CNVD
Basal cell lymphoma	21115979	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Breast cancer	17133270	CNVD
Autism	22495311	CNVD
Burkitt''s lymphoma	19759907	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Cancer	16790693	CNVD
Breast cancer	22032731	CNVD
Cervical cancer	21062161	CNVD
Breast cancer	21785460	CNVD
Retinoblastoma	16790693	CNVD
Esophageal adenocarcinoma	18820669	CNVD
Systemic lupus erythematosus	17503323	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
T-cell lymphomas	19863542	CNVD
Urothelial carcinoma	18382360	CNVD
Lung cancer	19153074	CNVD
Breast cancer	21364760	CNVD
Cancer	21183584	CNVD
Myelofibrosis	22110671	CNVD
Williams-beuren syndrome	16971481	CNVD
Uveal melanoma	20484589	CNVD
small cell lung cancer	20016488	CNVD
Chronic lymphocytic leukemia	20421269	CNVD
Renal cell carcinoma	18765545	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Gastric cancer	17908304	CNVD
Breast cancer	21509527	CNVD
Pancreatic cancer	17952125	CNVD

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25780400-25798800	Weak transcription	Liver	Liver
2	chr6:25787600-25790600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:25789000-25789400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:25790400-25790600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:25798800-25801000	Strong transcription	Liver	Liver
6	chr6:25801000-25806400	Weak transcription	Liver	Liver
7	chr6:25801600-25802200	Enhancers	Fetal Intestine Small	intestine
8	chr6:25804200-25804600	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr6:25806400-25806800	Strong transcription	Liver	Liver
10	chr6:25806800-25807600	Weak transcription	Liver	Liver
11	chr6:25807600-25808600	Strong transcription	Liver	Liver
12	chr6:25808600-25811000	Weak transcription	Liver	Liver
13	chr6:25811000-25813600	Strong transcription	Liver	Liver
14	chr6:25813600-25816400	Weak transcription	Liver	Liver
15	chr6:25814800-25815000	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr6:25815000-25816200	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr6:25815800-25816400	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr6:25815800-25816600	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr6:25815800-25816800	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr6:25815800-25817000	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr6:25816000-25817000	Enhancers	HUES6 Cell Line	embryonic stem cell
22	chr6:25816200-25816800	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr6:25816400-25821800	Strong transcription	Liver	Liver
24	chr6:25816600-25817000	Enhancers	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links