Variant report

Variant	rs6874421
Chromosome Location	chr5:178298626-178298627
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10035741	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10037614	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10039203	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10039702	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10041805	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10043597	0.81[EUR][1000 genomes]
rs10059618	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10059708	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10068330	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10068408	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10074505	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10223205	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12657785	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1963050	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2411991	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61747996	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6877197	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6896077	0.95[ASN][1000 genomes]
rs72814700	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72814702	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72816603	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72816608	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72816609	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72816613	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72816625	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72816629	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72816634	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883218	chr5:178219855-178349391	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv462574	chr5:178269682-178313078	Genic enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv600463	chr5:178269682-178313078	Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178287600-178302400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr5:178288200-178317400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
3	chr5:178288400-178299200	Strong transcription	Fetal Muscle Trunk	muscle
4	chr5:178288600-178299400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr5:178288800-178300000	Strong transcription	Fetal Lung	lung
6	chr5:178288800-178302200	Strong transcription	Skeletal Muscle Male	skeletal muscle
7	chr5:178288800-178317400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr5:178289000-178299600	Strong transcription	Cortex derived primary cultured neurospheres	brain
9	chr5:178289000-178301000	Strong transcription	Fetal Muscle Leg	muscle
10	chr5:178289000-178301600	Weak transcription	Stomach Mucosa	stomach
11	chr5:178289200-178299000	Strong transcription	Fetal Brain Female	brain
12	chr5:178289400-178302200	Strong transcription	Brain Anterior Caudate	brain
13	chr5:178289600-178317400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr5:178289800-178299000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr5:178289800-178300200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr5:178289800-178300200	Strong transcription	Muscle Satellite Cultured Cells	--
17	chr5:178290000-178299400	Weak transcription	Fetal Heart	heart
18	chr5:178290000-178302200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr5:178290600-178299000	Weak transcription	Fetal Brain Male	brain
20	chr5:178290600-178299600	Strong transcription	Brain Germinal Matrix	brain
21	chr5:178290600-178299800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr5:178290600-178301200	Strong transcription	Brain Cingulate Gyrus	brain
23	chr5:178290800-178298800	Strong transcription	Primary T cells from cord blood	blood
24	chr5:178290800-178300200	Strong transcription	Left Ventricle	heart
25	chr5:178291000-178299200	Strong transcription	Duodenum Smooth Muscle	Duodenum
26	chr5:178291000-178299200	Strong transcription	Fetal Thymus	thymus
27	chr5:178291000-178300000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr5:178291200-178317400	ZNF genes & repeats	Liver	Liver
29	chr5:178291400-178300200	Strong transcription	Dnd41	blood
30	chr5:178291600-178299000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr5:178291800-178299000	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
32	chr5:178292000-178303000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
33	chr5:178292200-178299200	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr5:178292200-178302200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr5:178292600-178299200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr5:178292600-178299400	Strong transcription	Rectal Mucosa Donor 29	rectum
37	chr5:178292600-178299400	Strong transcription	Skeletal Muscle Female	skeletal muscle
38	chr5:178292600-178299600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
39	chr5:178292600-178300200	Strong transcription	Primary B cells from peripheral blood	blood
40	chr5:178292600-178300200	Strong transcription	Brain Inferior Temporal Lobe	brain
41	chr5:178292600-178300600	Strong transcription	Rectal Mucosa Donor 31	rectum
42	chr5:178292600-178301200	Strong transcription	Osteobl	bone
43	chr5:178292600-178305000	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr5:178292600-178305200	Strong transcription	Stomach Smooth Muscle	stomach
45	chr5:178292800-178301400	Strong transcription	Rectal Smooth Muscle	rectum
46	chr5:178293000-178299200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr5:178293000-178299600	Strong transcription	Brain Angular Gyrus	brain
48	chr5:178293000-178300000	Strong transcription	H1 Cell Line	embryonic stem cell
49	chr5:178293400-178298800	Strong transcription	Gastric	stomach
50	chr5:178293400-178298800	Strong transcription	Right Ventricle	heart

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