Variant report

Variant	rs28497573
Chromosome Location	chr4:100838230-100838231
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:100837131..100839848-chr4:100866356..100868236,2	K562	blood:
2	chr4:100837896..100840734-chr4:100841683..100843412,2	MCF-7	breast:
3	chr4:100832439..100834484-chr4:100837119..100838825,2	MCF-7	breast:
4	chr4:100829396..100833198-chr4:100836822..100839868,3	MCF-7	breast:
5	chr4:100837674..100840166-chr4:100869128..100872455,4	K562	blood:

Variant related genes	Relation type
ENSG00000164032	Chromatin interaction
ENSG00000245322	Chromatin interaction
ENSG00000164031	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10001730	0.84[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs10002820	0.93[ASN][1000 genomes]
rs10014424	0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10016741	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10018937	0.93[ASN][1000 genomes]
rs10461176	0.93[ASN][1000 genomes]
rs1365494	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17029575	0.80[ASN][1000 genomes]
rs17029577	0.80[ASN][1000 genomes]
rs17029592	0.80[ASN][1000 genomes]
rs17029594	0.84[ASN][1000 genomes]
rs17029606	0.92[ASN][1000 genomes]
rs17029641	0.96[ASN][1000 genomes]
rs17029667	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17029681	0.91[ASN][1000 genomes]
rs17029696	0.84[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs17029698	0.84[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs17029717	0.87[ASN][1000 genomes]
rs2282587	0.92[ASN][1000 genomes]
rs2298734	0.96[ASN][1000 genomes]
rs28375729	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28445732	0.93[ASN][1000 genomes]
rs28553972	0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs28561548	0.84[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs28566137	0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs28604943	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28635099	0.84[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs2866175	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28705829	0.83[ASN][1000 genomes]
rs28709045	0.84[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs28824275	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28893880	0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs3737485	0.80[ASN][1000 genomes]
rs3775510	0.92[ASN][1000 genomes]
rs4463078	0.84[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs57238114	0.92[ASN][1000 genomes]
rs57862852	0.92[ASN][1000 genomes]
rs58512740	0.80[ASN][1000 genomes]
rs59439986	0.84[ASN][1000 genomes]
rs59768994	0.98[ASN][1000 genomes]
rs60203069	0.98[ASN][1000 genomes]
rs60584294	0.80[ASN][1000 genomes]
rs60899666	0.80[ASN][1000 genomes]
rs60994806	0.92[ASN][1000 genomes]
rs61229555	0.91[ASN][1000 genomes]
rs62305048	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879661	chr4:100805207-100869635	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	19 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	chr4:100815600-100840000	Weak transcription	Small Intestine	intestine
2	chr4:100816000-100839800	Weak transcription	Esophagus	oesophagus
3	chr4:100816000-100867000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr4:100816000-100867000	Weak transcription	Lung	lung
5	chr4:100816200-100838800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr4:100816200-100839800	Weak transcription	Aorta	Aorta
7	chr4:100816200-100840200	Weak transcription	Colonic Mucosa	Colon
8	chr4:100816200-100842200	Weak transcription	Pancreas	Pancrea
9	chr4:100816200-100851400	Weak transcription	A549	lung
10	chr4:100816200-100851600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr4:100816200-100853600	Weak transcription	NHLF	lung
12	chr4:100816200-100866200	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr4:100816400-100845800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr4:100816600-100839600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr4:100816600-100839800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr4:100816600-100841800	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr4:100816600-100843800	Weak transcription	Right Ventricle	heart
18	chr4:100819000-100838600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr4:100819600-100839800	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr4:100820000-100866200	Weak transcription	Fetal Heart	heart
21	chr4:100820600-100838400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr4:100823600-100845600	Weak transcription	Hela-S3	cervix
23	chr4:100823800-100838600	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr4:100823800-100839800	Weak transcription	Ovary	ovary
25	chr4:100824000-100865800	Weak transcription	Psoas Muscle	Psoas
26	chr4:100824200-100838400	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr4:100824400-100847000	Weak transcription	Brain Angular Gyrus	brain
28	chr4:100824400-100866000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr4:100824600-100838600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr4:100824800-100854200	Weak transcription	Brain Anterior Caudate	brain
31	chr4:100825400-100838600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr4:100826200-100844000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr4:100827600-100839400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr4:100827600-100856400	Weak transcription	Brain Substantia Nigra	brain
35	chr4:100827800-100838400	Weak transcription	Brain Germinal Matrix	brain
36	chr4:100827800-100838400	Weak transcription	Colon Smooth Muscle	Colon
37	chr4:100827800-100838600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr4:100827800-100838600	Weak transcription	Fetal Brain Male	brain
39	chr4:100827800-100838600	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr4:100827800-100839800	Weak transcription	Brain Cingulate Gyrus	brain
41	chr4:100828000-100838400	Weak transcription	Primary hematopoietic stem cells	blood
42	chr4:100828000-100838400	Weak transcription	NHDF-Ad	bronchial
43	chr4:100828800-100866200	Weak transcription	Stomach Mucosa	stomach
44	chr4:100829000-100838400	Weak transcription	Brain Hippocampus Middle	brain
45	chr4:100829000-100838400	Weak transcription	HUVEC	blood vessel
46	chr4:100829200-100838400	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr4:100829200-100838400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr4:100829200-100838400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
49	chr4:100829200-100838400	Weak transcription	Fetal Thymus	thymus
50	chr4:100829200-100838400	Weak transcription	HSMMtube	muscle

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