Variant report

Variant	nsv600874
Chromosome Location	chr6:5135156-5135675
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr6:5135188-5135253	Lung_OC	lung:	n/a	n/a
2	NR3C1	chr6:5135116-5135780	A549	lung:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr6:5135184-5135234	ECC-1	luminal epithelium:	n/a
2	chr6:5135184-5135234	NB4	blood:	n/a
3	chr6:5135184-5135234	T-47D	breast:	n/a
4	chr6:5135184-5135234	U87	brain:	n/a
5	chr6:5135184-5135234	GM06990	blood:	n/a
6	chr6:5135184-5135234	HEK293	kidney:	embryo
7	chr6:5135184-5135234	NT2-D1	testis:	n/a
8	chr6:5135184-5135234	HCPEpiC	choroid plexus:	n/a
9	chr6:5135184-5135234	SK-N-MC	brain:	n/a
10	chr6:5135184-5135234	PrEC	prostate:	n/a
11	chr6:5135184-5135234	MCF10A-Er-Src	breast:	n/a
12	chr6:5135184-5135234	HCM	heart:	n/a
13	chr6:5135184-5135234	HRPEpiC	eye:	n/a
14	chr6:5135184-5135234	AG04450	lung:	fetal
15	chr6:5135184-5135234	GM12892	blood:	n/a
16	chr6:5135184-5135234	GM12891	blood:	n/a
17	chr6:5135184-5135234	NHBE	bronchial:	n/a
18	chr6:5135184-5135234	AG09309	skin:	n/a
19	chr6:5135184-5135234	HNPCEpiC	eye:	n/a
20	chr6:5135184-5135234	H1-hESC	embryonic stem cell:	embryo
21	chr6:5135184-5135234	IMR90	lung:	fetal
22	chr6:5135184-5135234	ProgFib	skin:	n/a
23	chr6:5135184-5135234	HL-60	blood:	n/a
24	chr6:5135184-5135234	HAEpiC	amniotic membrane:	n/a
25	chr6:5135184-5135234	Jurkat	blood:	n/a
26	chr6:5135184-5135234	NHDF-neo	bronchial:	n/a
27	chr6:5135184-5135234	A549	lung:	n/a
28	chr6:5135184-5135234	BE2_C	brain:	n/a
29	chr6:5135184-5135234	Caco-2	colon:	n/a
30	chr6:5135184-5135234	PFSK-1	brain:	n/a
31	chr6:5135184-5135234	SK-N-SH	brain:	n/a
32	chr6:5135184-5135234	HIPEpiC	eye:	n/a
33	chr6:5135184-5135234	GM12878	blood:	n/a
34	chr6:5135184-5135234	HepG2	liver:	n/a
35	chr6:5135184-5135234	HRCEpiC	kidney:	n/a
36	chr6:5135184-5135234	HCT-116	colon:	n/a
37	chr6:5135184-5135234	GM19239	blood:	n/a
38	chr6:5135184-5135234	HUVEC	blood vessel:	n/a
39	chr6:5135184-5135234	AoSMC	blood vessel:	n/a
40	chr6:5135184-5135234	K562	blood:	n/a
41	chr6:5135184-5135234	HEEpiC	esophagus:	n/a
42	chr6:5135184-5135234	Hepatocyte	liver:	n/a
43	chr6:5135184-5135234	HRE	kidney:	n/a
44	chr6:5135184-5135234	AG10803	skin:	n/a
45	chr6:5135184-5135234	LNCaP	prostate:	n/a
46	chr6:5135184-5135234	SK-N-SH_RA	brain:	n/a
47	chr6:5135184-5135234	CMK	blood:	n/a
48	chr6:5135184-5135234	ovcar-3	ovarian:	n/a
49	chr6:5135184-5135234	Hela-S3	cervix:	n/a
50	chr6:5135184-5135234	AG04449	skin:	fetal

No data

Variant related genes	Relation type
LYRM4	TF binding region
LYRM4	CpG island

Extended variants
information (count: 55 )
Associated
traits (count: 98 )

Variant overlapped rSNPs/rCNVs (count:55 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs585956	chr6:5135156-5135157	Weak transcription Enhancers	TF binding region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
2	rs585970	chr6:5135160-5135161	Weak transcription Enhancers	TF binding region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
3	rs183674433	chr6:5135176-5135177	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
4	rs585998	chr6:5135179-5135180	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
5	rs73717674	chr6:5135184-5135185	Weak transcription Enhancers	TF binding region CpG island	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
6	rs113846353	chr6:5135188-5135189	Weak transcription Enhancers	TF binding region CpG island	1 gene(s)	Overlapped CNVs	n/a
7	rs73717675	chr6:5135212-5135213	Weak transcription Enhancers	TF binding region CpG island	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
8	rs562770485	chr6:5135229-5135230	Weak transcription Enhancers	TF binding region CpG island	1 gene(s)	Overlapped CNVs	n/a
9	rs111823365	chr6:5135240-5135241	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
10	rs373639851	chr6:5135260-5135261	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
11	rs188623445	chr6:5135268-5135269	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
12	rs71547285	chr6:5135272-5135273	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
13	rs575838029	chr6:5135278-5135279	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
14	rs71547286	chr6:5135288-5135289	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
15	rs71547287	chr6:5135291-5135292	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
16	rs192331787	chr6:5135296-5135297	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
17	rs586517	chr6:5135300-5135301	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
18	rs185237694	chr6:5135306-5135307	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
19	rs560672545	chr6:5135314-5135315	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
20	rs13220253	chr6:5135316-5135317	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
21	rs650785	chr6:5135319-5135320	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
22	rs111806223	chr6:5135328-5135329	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
23	rs650770	chr6:5135356-5135357	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
24	rs71547288	chr6:5135375-5135376	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
25	rs112560642	chr6:5135403-5135404	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
26	rs112552622	chr6:5135428-5135429	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
27	rs113777679	chr6:5135431-5135432	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
28	rs549470386	chr6:5135436-5135437	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
29	rs567685404	chr6:5135437-5135438	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
30	rs112953972	chr6:5135440-5135441	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
31	rs113541647	chr6:5135456-5135457	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
32	rs112129653	chr6:5135459-5135460	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
33	rs13220424	chr6:5135484-5135485	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
34	rs538027278	chr6:5135492-5135493	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
35	rs112732650	chr6:5135496-5135497	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
36	rs531320156	chr6:5135499-5135500	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
37	rs571598778	chr6:5135507-5135508	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
38	rs538954444	chr6:5135509-5135510	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
39	rs13217320	chr6:5135512-5135513	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
40	rs368920470	chr6:5135520-5135521	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
41	rs614296	chr6:5135540-5135541	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
42	rs9405803	chr6:5135543-5135544	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
43	rs112336418	chr6:5135548-5135549	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
44	rs9405804	chr6:5135552-5135553	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
45	rs557441855	chr6:5135563-5135564	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
46	rs553923023	chr6:5135568-5135569	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
47	rs112928044	chr6:5135580-5135581	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
48	rs373563537	chr6:5135604-5135605	Weak transcription Flanking Active TSS Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
49	rs572812671	chr6:5135619-5135620	Weak transcription Flanking Active TSS Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
50	rs112956077	chr6:5135624-5135625	Weak transcription Flanking Active TSS Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:98)

Disease	PMID	Source
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
Lung cancer	18438408	CNVD
Bladder cancer	21909424	CNVD
Multiple myeloma	17550852	CNVD
Ewing''s sarcoma	17952124	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Gastric cancer	16891809	CNVD
Ovarian cancer	21781307	CNVD
Autism	22495311	CNVD
Autism	21448237	CNVD
Cancer	20164919	CNVD
Melanoma	18172304	CNVD
Invasive pancreatic ductal carcinoma	16982739	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
small cell lung cancer	20016488	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
Congenital anomalies of the kidney and urinary tract	18694510	CNVD
Nasopharyngeal cancer	22815911	CNVD
dysmorphism	22105932	CNVD
psychomotor delay	22105932	CNVD
Ovarian cancer	19193619	CNVD
Osteosarcoma	16790693	CNVD
Hepatocellular carcinoma	16750200	CNVD
Basal cell lymphoma	21115979	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Amyotrophic lateral sclerosis	20685689	CNVD
Breast cancer	21364760	CNVD

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5128800-5136200	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr6:5129000-5136800	Weak transcription	Primary T cells from cord blood	blood
3	chr6:5129000-5162000	Weak transcription	K562	blood
4	chr6:5129800-5138000	Weak transcription	HepG2	liver
5	chr6:5130600-5140400	Weak transcription	Gastric	stomach
6	chr6:5130600-5172200	Weak transcription	Lung	lung
7	chr6:5130800-5139400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:5130800-5142400	Weak transcription	Fetal Intestine Small	intestine
9	chr6:5131000-5143000	Weak transcription	Spleen	Spleen
10	chr6:5131800-5135200	Weak transcription	Placenta	Placenta
11	chr6:5132000-5139200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr6:5133200-5141800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:5133400-5135200	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr6:5133400-5136600	Weak transcription	Primary hematopoietic stem cells	blood
15	chr6:5133400-5143200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr6:5133400-5143800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr6:5133400-5144000	Weak transcription	Fetal Brain Male	brain
18	chr6:5133400-5146000	Weak transcription	Psoas Muscle	Psoas
19	chr6:5133400-5151600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr6:5133600-5136600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:5133600-5143400	Weak transcription	Stomach Smooth Muscle	stomach
22	chr6:5133600-5143800	Weak transcription	Fetal Stomach	stomach
23	chr6:5133800-5136200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr6:5133800-5136200	Weak transcription	Brain Anterior Caudate	brain
25	chr6:5133800-5136200	Weak transcription	HUVEC	blood vessel
26	chr6:5133800-5139200	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr6:5133800-5139400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr6:5133800-5140000	Weak transcription	GM12878-XiMat	blood
29	chr6:5133800-5140600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr6:5133800-5142400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr6:5133800-5143000	Weak transcription	Fetal Muscle Leg	muscle
32	chr6:5133800-5143400	Weak transcription	Left Ventricle	heart
33	chr6:5133800-5143600	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr6:5133800-5153400	Weak transcription	Right Ventricle	heart
35	chr6:5134000-5135800	Enhancers	NHEK	skin
36	chr6:5134200-5135800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr6:5134200-5139000	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr6:5134200-5144200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr6:5134400-5135600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr6:5134400-5136000	Weak transcription	Primary B cells from peripheral blood	blood
41	chr6:5134400-5139000	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr6:5134400-5139000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr6:5134600-5136200	Weak transcription	Adipose Nuclei	Adipose
44	chr6:5134600-5138800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr6:5134600-5139000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr6:5134600-5139000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr6:5134800-5135800	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr6:5135000-5135200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr6:5135000-5151000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr6:5135200-5139600	Weak transcription	Cortex derived primary cultured neurospheres	brain

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