Variant report

Variant	rs55879225
Chromosome Location	chr10:112761571-112761572
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11195357	0.87[EUR][1000 genomes]
rs11195367	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11195378	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11195384	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11195386	0.97[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11195389	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11195392	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11195393	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12240492	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12244153	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12244273	0.84[AFR][1000 genomes]
rs12245003	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12248431	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12248632	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12248739	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12249521	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12249906	0.81[AFR][1000 genomes]
rs12253950	0.86[ASN][1000 genomes]
rs12255335	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12256152	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12258923	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12266042	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12267661	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12268160	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12268606	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1327552	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1410052	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1538998	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17128099	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17128102	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17128270	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1800038	0.82[ASN][1000 genomes]
rs3750621	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3750622	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3763691	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4917593	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4918610	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4918620	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs56005122	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56302131	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56350255	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72819772	0.90[ASN][1000 genomes]
rs9804245	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035602	chr10:112636053-112781413	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv1051327	chr10:112650316-112772917	ZNF genes & repeats Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv540774	chr10:112650316-112772917	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv831985	chr10:112652089-112803103	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv1048809	chr10:112683822-112781413	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
6	nsv1042020	chr10:112686323-112795159	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	nsv1035422	chr10:112724159-112764594	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1048444	chr10:112724159-112795159	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
9	nsv1036202	chr10:112726834-112781413	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
10	nsv1051595	chr10:112730022-112789048	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
11	nsv1047412	chr10:112747749-112781413	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:112700600-112764000	Weak transcription	Placenta	Placenta
2	chr10:112705200-112789800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr10:112707200-112784200	Weak transcription	Left Ventricle	heart
4	chr10:112723200-112783000	Weak transcription	Small Intestine	intestine
5	chr10:112726600-112764000	Weak transcription	HUVEC	blood vessel
6	chr10:112727400-112764400	Weak transcription	Adipose Nuclei	Adipose
7	chr10:112732400-112763800	Weak transcription	Fetal Muscle Trunk	muscle
8	chr10:112732600-112789400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr10:112732800-112782800	Weak transcription	Esophagus	oesophagus
10	chr10:112732800-112789400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr10:112738000-112782800	Weak transcription	Rectal Smooth Muscle	rectum
12	chr10:112738200-112784600	Weak transcription	Ovary	ovary
13	chr10:112738400-112779400	Weak transcription	HepG2	liver
14	chr10:112739200-112774400	Weak transcription	Gastric	stomach
15	chr10:112739400-112764400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr10:112739600-112769000	Weak transcription	Fetal Kidney	kidney
17	chr10:112740400-112791800	Weak transcription	Colon Smooth Muscle	Colon
18	chr10:112744800-112778800	Weak transcription	Hela-S3	cervix
19	chr10:112745600-112762400	Weak transcription	Duodenum Mucosa	Duodenum
20	chr10:112745600-112769400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr10:112745600-112777600	Weak transcription	Pancreas	Pancrea
22	chr10:112746000-112783400	Weak transcription	Colonic Mucosa	Colon
23	chr10:112746800-112763800	Weak transcription	Fetal Stomach	stomach
24	chr10:112746800-112782800	Weak transcription	Psoas Muscle	Psoas
25	chr10:112747400-112779800	Weak transcription	Fetal Brain Male	brain
26	chr10:112747600-112785200	Weak transcription	Fetal Brain Female	brain
27	chr10:112749200-112789400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr10:112750400-112785000	Weak transcription	A549	lung
29	chr10:112751800-112772600	Weak transcription	K562	blood
30	chr10:112752000-112764200	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr10:112752800-112763600	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr10:112753000-112764000	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr10:112753000-112772600	Weak transcription	Brain Angular Gyrus	brain
34	chr10:112753200-112764600	Weak transcription	Thymus	Thymus
35	chr10:112753200-112779200	Weak transcription	Brain Hippocampus Middle	brain
36	chr10:112753200-112779600	Weak transcription	Brain Anterior Caudate	brain
37	chr10:112753200-112782600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr10:112753200-112784200	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr10:112753400-112764600	Weak transcription	Brain Cingulate Gyrus	brain
40	chr10:112753400-112768200	Weak transcription	HMEC	breast
41	chr10:112753400-112776200	Weak transcription	Lung	lung
42	chr10:112753400-112789600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr10:112753800-112764400	Weak transcription	Stomach Smooth Muscle	stomach
44	chr10:112753800-112775000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr10:112754000-112764000	Weak transcription	HSMM	muscle
46	chr10:112754000-112764200	Weak transcription	HSMMtube	muscle
47	chr10:112754000-112764400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr10:112754000-112765200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr10:112754000-112767000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr10:112754000-112767000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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