Variant report

Variant	rs55998107
Chromosome Location	chr4:106295703-106295704
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1017988	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1391436	0.85[EUR][1000 genomes]
rs1498124	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035436	0.85[EUR][1000 genomes]
rs17035468	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035475	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035478	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035512	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035581	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17035584	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17035586	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17035619	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28561818	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34628486	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41372153	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41438151	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4273475	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4560414	0.85[EUR][1000 genomes]
rs4698937	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4698938	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4699169	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4699170	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4699172	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4699173	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55755102	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55758341	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56184249	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56256811	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56387770	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56397029	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs58566149	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59738222	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59939789	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6533188	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66517713	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs66712969	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66867451	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66956902	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs66988826	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs67075366	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67104841	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67124324	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67209101	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67248885	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs67457538	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67554145	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs67670123	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6811159	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs68146425	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6823995	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72665979	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72665980	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72665984	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668208	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72668219	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72668239	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7656023	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7673307	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7678439	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9942141	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[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	nsv461609	chr4:105869548-106366209	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv470063	chr4:105869548-106366209	Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv595007	chr4:105869548-106366209	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv879698	chr4:106155751-106309224	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
6	nsv830027	chr4:106222010-106406738	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
7	nsv980463	chr4:106294684-106304254	Weak transcription Strong transcription ZNF genes & repeats Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106253800-106343000	Weak transcription	Psoas Muscle	Psoas
2	chr4:106272800-106304000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr4:106274400-106326800	Weak transcription	Small Intestine	intestine
4	chr4:106274800-106330400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr4:106275800-106307800	Weak transcription	Brain Hippocampus Middle	brain
6	chr4:106278600-106307600	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr4:106279000-106339600	Weak transcription	HSMMtube	muscle
8	chr4:106279000-106347400	Weak transcription	Rectal Smooth Muscle	rectum
9	chr4:106280000-106344600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr4:106281000-106326800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr4:106282600-106316800	Weak transcription	Fetal Heart	heart
12	chr4:106282600-106325800	Weak transcription	Brain Angular Gyrus	brain
13	chr4:106282600-106335600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr4:106283600-106330000	Weak transcription	Right Ventricle	heart
15	chr4:106285000-106326000	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr4:106287000-106320800	Weak transcription	NH-A	brain
17	chr4:106287000-106335800	Weak transcription	Colonic Mucosa	Colon
18	chr4:106287600-106304000	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr4:106287600-106304800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr4:106287600-106335600	Weak transcription	Esophagus	oesophagus
21	chr4:106287600-106357000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr4:106287800-106303800	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr4:106287800-106303800	Weak transcription	Fetal Stomach	stomach
24	chr4:106287800-106304000	Weak transcription	Ovary	ovary
25	chr4:106287800-106306000	Weak transcription	Placenta	Placenta
26	chr4:106287800-106318600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr4:106287800-106320000	Weak transcription	A549	lung
28	chr4:106287800-106326800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr4:106287800-106330200	Weak transcription	Gastric	stomach
30	chr4:106287800-106335400	Weak transcription	Spleen	Spleen
31	chr4:106287800-106335800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr4:106287800-106347600	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr4:106288400-106297200	Weak transcription	HMEC	breast
34	chr4:106288400-106306000	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr4:106288400-106318600	Weak transcription	Aorta	Aorta
36	chr4:106288400-106330200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr4:106288400-106330200	Weak transcription	Lung	lung
38	chr4:106288600-106304000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr4:106288600-106325600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr4:106288600-106335400	Weak transcription	Thymus	Thymus
41	chr4:106288800-106303800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr4:106288800-106320600	Weak transcription	NHEK	skin
43	chr4:106288800-106325600	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr4:106289200-106325600	Weak transcription	Fetal Muscle Leg	muscle
45	chr4:106289400-106316800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr4:106289600-106335400	Weak transcription	Brain Anterior Caudate	brain
47	chr4:106290000-106306000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr4:106290000-106347400	Weak transcription	Fetal Kidney	kidney
49	chr4:106290200-106301000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr4:106290200-106303600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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