Variant report

Variant	rs28465411
Chromosome Location	chr4:87698939-87698940
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10006546	0.89[AFR][1000 genomes]
rs10009590	0.89[AFR][1000 genomes]
rs10013483	1.00[AFR][1000 genomes]
rs10027356	0.84[AFR][1000 genomes]
rs10032048	0.89[AFR][1000 genomes]
rs10034609	0.89[AFR][1000 genomes]
rs28404766	1.00[AFR][1000 genomes]
rs28405358	0.84[AFR][1000 genomes]
rs28405932	0.89[AFR][1000 genomes]
rs28452829	0.89[AFR][1000 genomes]
rs28470706	1.00[AFR][1000 genomes]
rs28472633	0.89[AFR][1000 genomes]
rs28481577	0.84[AFR][1000 genomes]
rs28539152	0.84[AFR][1000 genomes]
rs28568305	0.89[AFR][1000 genomes]
rs28676725	0.95[AFR][1000 genomes]
rs28718854	1.00[AFR][1000 genomes]
rs28725465	0.84[AFR][1000 genomes]
rs28798516	1.00[AFR][1000 genomes]
rs34226837	0.92[AFR][1000 genomes]
rs61160693	0.89[AFR][1000 genomes]
rs72872237	0.87[AFR][1000 genomes]
rs72872254	0.84[AFR][1000 genomes]
rs72872257	0.84[AFR][1000 genomes]
rs72872260	0.84[AFR][1000 genomes]
rs72874275	0.89[AFR][1000 genomes]
rs72874281	0.89[AFR][1000 genomes]
rs9992507	1.00[AFR][1000 genomes]
rs9994616	1.00[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv594787	chr4:87221827-87888667	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv830001	chr4:87585278-87748643	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87631200-87712200	Weak transcription	Aorta	Aorta
2	chr4:87635200-87737400	Weak transcription	Fetal Brain Male	brain
3	chr4:87639400-87739200	Weak transcription	A549	lung
4	chr4:87642400-87735800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr4:87642600-87719200	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr4:87655600-87704400	Weak transcription	Hela-S3	cervix
7	chr4:87661600-87710200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr4:87661600-87711400	Weak transcription	Brain Germinal Matrix	brain
9	chr4:87661600-87712000	Weak transcription	Esophagus	oesophagus
10	chr4:87661600-87737800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr4:87661800-87708000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr4:87661800-87712000	Weak transcription	Fetal Intestine Small	intestine
13	chr4:87661800-87728800	Weak transcription	Pancreas	Pancrea
14	chr4:87663000-87711400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr4:87671800-87713000	Weak transcription	HSMMtube	muscle
16	chr4:87672000-87712200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr4:87672800-87710000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr4:87672800-87712000	Weak transcription	Lung	lung
19	chr4:87676200-87699600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr4:87677000-87711400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr4:87677200-87708600	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr4:87678800-87699800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr4:87679000-87712000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr4:87679000-87712400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr4:87679200-87699800	Strong transcription	HUES64 Cell Line	embryonic stem cell
26	chr4:87679400-87700200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr4:87679400-87702200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr4:87681000-87710200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr4:87682200-87701800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr4:87684400-87710000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr4:87685000-87699400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr4:87685800-87699600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
33	chr4:87685800-87699800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr4:87686200-87712200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr4:87686400-87699800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr4:87687200-87699800	Strong transcription	HUES6 Cell Line	embryonic stem cell
37	chr4:87688600-87708000	Weak transcription	Fetal Stomach	stomach
38	chr4:87689400-87738200	Weak transcription	Gastric	stomach
39	chr4:87690000-87738800	Weak transcription	Rectal Smooth Muscle	rectum
40	chr4:87690600-87699600	Strong transcription	Fetal Lung	lung
41	chr4:87690800-87736000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr4:87691000-87704600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr4:87691400-87699600	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr4:87691400-87712000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
45	chr4:87691600-87708400	Weak transcription	Left Ventricle	heart
46	chr4:87692800-87703400	Weak transcription	Fetal Intestine Large	intestine
47	chr4:87692800-87708000	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr4:87692800-87734200	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr4:87693000-87706800	Weak transcription	Colon Smooth Muscle	Colon
50	chr4:87693000-87712000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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