Variant report

Variant	rs3777482
Chromosome Location	chr6:131573164-131573165
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10484764	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1190802	0.80[ASN][1000 genomes]
rs1190810	0.80[ASN][1000 genomes]
rs1190812	0.80[ASN][1000 genomes]
rs12525492	0.94[ASN][1000 genomes]
rs12526166	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12660246	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12662825	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12664060	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1322596	0.81[ASN][1000 genomes]
rs17060063	1.00[AFR][1000 genomes]
rs17060068	1.00[AFR][1000 genomes]
rs17060099	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17060119	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs17060127	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1746469	0.81[ASN][1000 genomes]
rs2224637	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28841032	0.94[ASN][1000 genomes]
rs3756773	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3777468	1.00[AFR][1000 genomes]
rs3777469	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3777470	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3777471	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3777473	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3777474	0.80[ASN][1000 genomes]
rs3777477	0.80[ASN][1000 genomes]
rs3777479	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3777481	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3777484	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3777491	0.94[ASN][1000 genomes]
rs3777495	0.93[ASN][1000 genomes]
rs3777496	0.93[ASN][1000 genomes]
rs3777497	0.94[ASN][1000 genomes]
rs3777498	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3777499	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3822867	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4596509	0.81[ASN][1000 genomes]
rs9492888	0.94[ASN][1000 genomes]
rs9492889	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032955	chr6:131298803-131818502	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv538443	chr6:131298803-131818502	Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv830807	chr6:131390952-131581931	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv886664	chr6:131443843-131754930	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv886665	chr6:131518894-131611309	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
6	nsv830808	chr6:131521115-131735320	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
7	esv1835599	chr6:131554291-131590766	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:131563000-131580000	Weak transcription	Small Intestine	intestine
2	chr6:131566800-131576200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr6:131567200-131576400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr6:131571000-131573600	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr6:131571000-131573600	Active TSS	Duodenum Mucosa	Duodenum
6	chr6:131571000-131573800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr6:131571000-131574000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr6:131571000-131574400	Active TSS	Brain Germinal Matrix	brain
9	chr6:131571000-131574400	Active TSS	Brain Inferior Temporal Lobe	brain
10	chr6:131571000-131574400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
11	chr6:131571000-131574400	Active TSS	Fetal Intestine Large	intestine
12	chr6:131571200-131573200	Active TSS	Right Atrium	heart
13	chr6:131571200-131573400	Active TSS	Fetal Brain Male	brain
14	chr6:131571200-131573400	Active TSS	Fetal Intestine Small	intestine
15	chr6:131571200-131573400	Active TSS	Fetal Muscle Leg	muscle
16	chr6:131571200-131573600	Flanking Active TSS	Primary T cells from cord blood	blood
17	chr6:131571200-131573800	Active TSS	Duodenum Smooth Muscle	Duodenum
18	chr6:131571200-131574000	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr6:131571200-131574000	Active TSS	Brain Hippocampus Middle	brain
20	chr6:131571200-131574200	Active TSS	Brain Cingulate Gyrus	brain
21	chr6:131571200-131574200	Active TSS	Fetal Brain Female	brain
22	chr6:131571200-131574400	Active TSS	Brain Angular Gyrus	brain
23	chr6:131571200-131575200	Active TSS	Pancreatic Islets	Pancreatic Islet
24	chr6:131571400-131573200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
25	chr6:131571400-131573400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
26	chr6:131571400-131573400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr6:131571600-131573200	Active TSS	Cortex derived primary cultured neurospheres	brain
28	chr6:131571600-131573800	Enhancers	Colon Smooth Muscle	Colon
29	chr6:131571600-131574000	Active TSS	H9 Cell Line	embryonic stem cell
30	chr6:131571800-131573200	Enhancers	Primary T helper cells fromperipheralblood	blood
31	chr6:131571800-131573200	Active TSS	Fetal Adrenal Gland	Adrenal Gland
32	chr6:131571800-131573200	Weak transcription	Left Ventricle	heart
33	chr6:131571800-131573400	Weak transcription	Spleen	Spleen
34	chr6:131571800-131574200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr6:131571800-131574200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
36	chr6:131571800-131576600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr6:131571800-131576600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr6:131571800-131580000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr6:131571800-131583000	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr6:131571800-131583200	Weak transcription	Aorta	Aorta
41	chr6:131571800-131587200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr6:131571800-131591400	Weak transcription	Psoas Muscle	Psoas
43	chr6:131571800-131592600	Weak transcription	Fetal Thymus	thymus
44	chr6:131571800-131596800	Weak transcription	Lung	lung
45	chr6:131571800-131603000	Weak transcription	Esophagus	oesophagus
46	chr6:131571800-131614400	Weak transcription	Gastric	stomach
47	chr6:131572000-131573200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr6:131572000-131573200	Active TSS	Brain Anterior Caudate	brain
49	chr6:131572000-131573400	Enhancers	Liver	Liver
50	chr6:131572000-131573800	Enhancers	Breast Myoepithelial Primary Cells	Breast

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