Variant report

Variant	nsv882382
Chromosome Location	chr5:92853645-92891029
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:0)
LncRNA
region (count:84)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:84 , 50 per page) page: 1 2

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM172A-2	chr5:92880501-92880621	NR_021490
2	lnc-FAM172A-2	chr5:92889467-92889569	NONHSAT102805
3	lnc-FAM172A-2	chr5:92889467-92889569	NONHSAT102794
4	lnc-FAM172A-2	chr5:92880501-92880621	NONHSAT147347
5	lnc-FAM172A-2	chr5:92889467-92889569	NONHSAT102797
6	lnc-FAM172A-2	chr5:92890580-92890701	NR_109825
7	lnc-FAM172A-2	chr5:92890580-92890701	NONHSAT102797
8	lnc-FAM172A-2	chr5:92889467-92889569	NONHSAT102806
9	lnc-FAM172A-2	chr5:92880501-92880621	NONHSAT102805
10	lnc-NR2F1-1	chr5:92877578-92878107	NONHSAT102804
11	lnc-FAM172A-2	chr5:92877578-92879730	NONHSAT102805
12	lnc-FAM172A-2	chr5:92877578-92879730	NONHSAT102803
13	lnc-FAM172A-2	chr5:92889467-92889569	ENSG00000237187.4
14	lnc-FAM172A-2	chr5:92890580-92890701	NONHSAT102803
15	lnc-FAM172A-2	chr5:92880501-92880621	NR_109818
16	lnc-FAM172A-2	chr5:92889467-92889569	NR_109825
17	lnc-FAM172A-2	chr5:92890580-92890701	NONHSAT102796
18	lnc-FAM172A-2	chr5:92890580-92890701	NR_021491
19	lnc-FAM172A-2	chr5:92877578-92879730	NR_109818
20	lnc-FAM172A-2	chr5:92889467-92889569	ENSG00000237187.4
21	lnc-FAM172A-2	chr5:92889467-92889569	NONHSAT102787
22	lnc-FAM172A-2	chr5:92890580-92890701	NR_021490
23	lnc-FAM172A-2	chr5:92890580-92890701	ENSG00000237187.4
24	lnc-FAM172A-2	chr5:92889467-92889569	ENSG00000237187.4
25	lnc-FAM172A-2	chr5:92890580-92890701	NR_109819
26	lnc-FAM172A-2	chr5:92889467-92889569	NONHSAT102793
27	lnc-FAM172A-2	chr5:92890580-92890701	NONHSAT102790
28	lnc-FAM172A-2	chr5:92877578-92879730	ENSG00000237187.4
29	lnc-FAM172A-2	chr5:92880501-92880621	NONHSAT102789
30	lnc-FAM172A-2	chr5:92877578-92879730	ENSG00000237187
31	lnc-FAM172A-2	chr5:92889467-92889569	NR_021491
32	lnc-FAM172A-2	chr5:92890580-92890701	NR_109821
33	lnc-FAM172A-2	chr5:92880501-92880621	ENSG00000237187.4
34	lnc-FAM172A-2	chr5:92880501-92880621	NONHSAT102803
35	lnc-FAM172A-2	chr5:92889467-92889569	NR_109820
36	lnc-FAM172A-2	chr5:92889467-92889569	ENSG00000237187.4
37	lnc-FAM172A-2	chr5:92890580-92890701	NR_109820
38	lnc-FAM172A-2	chr5:92889467-92889569	NR_021490
39	lnc-FAM172A-2	chr5:92880501-92880621	ENSG00000237187
40	lnc-FAM172A-2	chr5:92890580-92890701	NONHSAT102793
41	lnc-FAM172A-2	chr5:92889470-92889569	NONHSAT102809
42	lnc-FAM172A-2	chr5:92880597-92880621	NONHSAT102806
43	lnc-FAM172A-2	chr5:92889467-92889569	NR_109823
44	lnc-FAM172A-2	chr5:92889467-92889569	NONHSAT102790
45	lnc-FAM172A-2	chr5:92889467-92889569	NONHSAT102789
46	lnc-NR2F1-1	chr5:92889467-92889570	NONHSAT102804
47	lnc-FAM172A-2	chr5:92889467-92889569	ENSG00000237187
48	lnc-FAM172A-2	chr5:92890580-92890701	NONHSAT102789
49	lnc-FAM172A-2	chr5:92880501-92880621	ENSG00000237187.4
50	lnc-FAM172A-2	chr5:92889467-92889569	NONHSAT102792

No data

Variant related genes	Relation type
C17orf100	miRNA target sites
ARHGAP21	miRNA target sites
MIDN	miRNA target sites
ARID1A	miRNA target sites
GRIA2	miRNA target sites
FOXO1	miRNA target sites
HMGA2	miRNA target sites
VSNL1	miRNA target sites

Extended variants
information (count: 1112 )
Associated
traits (count: 77 )

Variant overlapped rSNPs/rCNVs (count:1112 , 50 per page) page: 1 2 3 4 5 6 7 ... 23

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs993683	chr5:92853645-92853646	Strong transcription Weak transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
2	rs565641980	chr5:92853698-92853699	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
3	rs529332431	chr5:92853704-92853705	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
4	rs549517331	chr5:92853728-92853729	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
5	rs75939657	chr5:92853744-92853745	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
6	rs531719623	chr5:92853749-92853750	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
7	rs184517483	chr5:92853818-92853819	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
8	rs188139403	chr5:92853896-92853897	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
9	rs148234285	chr5:92853921-92853922	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
10	rs116309987	chr5:92853927-92853928	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
11	rs567850848	chr5:92853955-92853956	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
12	rs192499844	chr5:92853962-92853963	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
13	rs72786617	chr5:92854065-92854066	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
14	rs577689608	chr5:92854077-92854078	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
15	rs535914975	chr5:92854110-92854111	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
16	rs555856583	chr5:92854132-92854133	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
17	rs575767624	chr5:92854225-92854226	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
18	rs142803867	chr5:92854244-92854245	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
19	rs545981939	chr5:92854289-92854290	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
20	rs184551323	chr5:92854347-92854348	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
21	rs558571656	chr5:92854448-92854449	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
22	rs368800160	chr5:92854579-92854580	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
23	rs188996489	chr5:92854599-92854600	Strong transcription Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
24	rs541330806	chr5:92854642-92854643	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
25	rs193183775	chr5:92854862-92854863	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
26	rs560888833	chr5:92854879-92854880	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
27	rs574697606	chr5:92854884-92854885	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
28	rs181531854	chr5:92854889-92854890	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
29	rs556301438	chr5:92854973-92854974	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
30	rs146994712	chr5:92855011-92855012	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
31	rs576235616	chr5:92855030-92855031	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
32	rs542092077	chr5:92855052-92855053	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
33	rs138381250	chr5:92855062-92855063	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
34	rs551474315	chr5:92855074-92855075	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
35	rs565290938	chr5:92855165-92855166	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
36	rs527932095	chr5:92855190-92855191	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
37	rs78409590	chr5:92855230-92855231	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
38	rs527671623	chr5:92855295-92855296	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
39	rs186868209	chr5:92855322-92855323	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
40	rs536434865	chr5:92855354-92855355	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
41	rs549990993	chr5:92855394-92855395	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
42	rs150608265	chr5:92855449-92855450	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
43	rs558480838	chr5:92855511-92855512	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
44	rs538389865	chr5:92855517-92855518	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
45	rs541095555	chr5:92855518-92855519	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
46	rs558228801	chr5:92855530-92855531	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
47	rs572013905	chr5:92855603-92855604	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
48	rs372724668	chr5:92855612-92855613	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
49	rs189722252	chr5:92855614-92855615	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
50	rs202004034	chr5:92855722-92855723	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:77)

Disease	PMID	Source
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Metanephric adenoma	20802469	CNVD
Ewing''s sarcoma	21437220	CNVD
Glioblastoma multiforme	21080181	CNVD
Acute lymphoblastic leukemia	17690704	CNVD
Gastrointestinal stromal cancer	16982739	CNVD
Medulloblastoma	21979893	CNVD
Phyllodes tumor	17334353	CNVD
Malaria	21533027	CNVD
Renal cell carcinoma	19461508	CNVD
Cancer	20164919	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Cancer	16751803	CNVD
Intellectual disability	22102821	CNVD
Breast cancer	17603634	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Melanoma	18172304	CNVD
Glioma	20126413	CNVD
Breast cancer	17393978	CNVD
Cancer	21359685	CNVD
Non-small cell lung cancer	21829676	CNVD
adenomatous polyposis	22470819	CNVD
Cancer	22429812	CNVD
Cancer	21637783	CNVD
Colorectal cancer	20709793	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Liposarcoma	21253554	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	19960244	CNVD
Glioblastoma multiforme	17387387	CNVD
Breast cancer	21858162	CNVD
Leukemia	17361228	CNVD
Myelodysplastic syndrome	18508791	CNVD
5q-syndrome	17576883	CNVD
Gastric cancer	17908304	CNVD
Lung cancer	16740712	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Urothelial carcinoma	21177765	CNVD
Esophageal adenocarcinoma	19417022	CNVD
Barrett''s syndrome	19417022	CNVD
Lung cancer	18438408	CNVD
Esophageal adenocarcinoma	18519675	CNVD
Retinoblastoma	22278416	CNVD
Bipolar disorder	18458673	CNVD
Thyroid cancer	19087340	CNVD
Breast cancer	21785460	CNVD
Merkel cell carcinoma	19020549	CNVD
Squamous cell cancer	20885788	CNVD
Hepatocellular carcinoma	16750200	CNVD
Neurodevelopmental disorder	22521361	CNVD
Prostate cancer	18632612	CNVD
Breast cancer	17133270	CNVD
Acute myeloid leukemia	20729466	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Acute myeloid leukemia	21251322	CNVD
lymphocytic leukemia	21291569	CNVD
Testicular cancer	18059402	CNVD
Colorectal cancer	16272173	CNVD
Prostate cancer	16573809	CNVD
Basal cell lymphoma	17053054	CNVD
Chronic lymphocytic leukemia	18922857	CNVD
Mental retardation	19471318	CNVD
Renal cell carcinoma	18194544	CNVD
Chronic lymphocytic leukemia	20421269	CNVD
Cancer	20164920	CNVD
Myelodysplastic syndrome	21251322	CNVD
abnormal development	18461090	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
small cell lung cancer	20016488	CNVD
Myelofibrosis	22110671	CNVD
Colorectal cancer	16774939	CNVD

Chromatin state (count:342 , 50 per page) page: 1 2 3 4 5 6 7

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:92815200-92859200	Weak transcription	Fetal Brain Male	brain
2	chr5:92827000-92858200	Weak transcription	Ovary	ovary
3	chr5:92827200-92858200	Weak transcription	Fetal Stomach	stomach
4	chr5:92839600-92857000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr5:92839800-92855200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr5:92841400-92857400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr5:92841600-92858200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr5:92847200-92857200	Weak transcription	Fetal Lung	lung
9	chr5:92847600-92854200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr5:92848600-92854800	Weak transcription	HSMM	muscle
11	chr5:92848800-92855000	Weak transcription	NHLF	lung
12	chr5:92849200-92854600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr5:92849200-92855200	Weak transcription	NHDF-Ad	bronchial
14	chr5:92849200-92855400	Weak transcription	HUVEC	blood vessel
15	chr5:92850200-92857400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr5:92850400-92854800	Weak transcription	Osteobl	bone
17	chr5:92850600-92854800	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr5:92853400-92854600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr5:92853600-92854600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr5:92854200-92857200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr5:92854600-92855200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr5:92854600-92857200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr5:92854600-92857400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr5:92854800-92856000	Enhancers	HSMM	muscle
25	chr5:92854800-92856200	Enhancers	Osteobl	bone
26	chr5:92854800-92856400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr5:92854800-92856400	Enhancers	Muscle Satellite Cultured Cells	--
28	chr5:92855000-92855400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr5:92855000-92856000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr5:92855000-92856200	Enhancers	NH-A	brain
31	chr5:92855000-92856200	Enhancers	NHLF	lung
32	chr5:92855200-92855400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
33	chr5:92855200-92856000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr5:92855200-92856000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr5:92855200-92856200	Enhancers	NHDF-Ad	bronchial
36	chr5:92855400-92856800	Enhancers	HUVEC	blood vessel
37	chr5:92855400-92858000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr5:92855400-92858600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr5:92855800-92858000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr5:92856000-92856600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr5:92856000-92858800	Weak transcription	HSMM	muscle
42	chr5:92856000-92859000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr5:92856200-92867000	Weak transcription	NHLF	lung
44	chr5:92856200-92867400	Weak transcription	Osteobl	bone
45	chr5:92856200-92868200	Weak transcription	NH-A	brain
46	chr5:92856400-92856800	Genic enhancers	Muscle Satellite Cultured Cells	--
47	chr5:92856400-92857400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr5:92856600-92857600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr5:92856800-92857400	Strong transcription	Muscle Satellite Cultured Cells	--
50	chr5:92856800-92857400	Weak transcription	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links