Variant report

Variant	rs10516733
Chromosome Location	chr4:85844157-85844158
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:85844090..85846010-chr4:85857826..85860121,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10516726	0.92[EUR][1000 genomes]
rs10516728	0.92[EUR][1000 genomes]
rs10516729	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10516734	0.97[ASN][1000 genomes]
rs11726635	0.85[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap]
rs11737191	0.88[ASN][1000 genomes]
rs11936391	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11936719	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11947757	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1484662	1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs1601286	1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap]
rs17009245	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.92[EUR][1000 genomes]
rs17009286	1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap]
rs3747681	0.92[EUR][1000 genomes]
rs4544703	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7692204	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs894533	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1829655	chr4:85577491-86292692	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv427684	chr4:85668487-85863446	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv519588	chr4:85762385-86591202	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv508295	chr4:85822802-85885027	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:85781800-85848600	Weak transcription	Stomach Smooth Muscle	stomach
2	chr4:85798800-85873200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr4:85809000-85872800	Weak transcription	A549	lung
4	chr4:85811800-85851200	Weak transcription	Esophagus	oesophagus
5	chr4:85813000-85858800	Weak transcription	Duodenum Mucosa	Duodenum
6	chr4:85816000-85852400	Weak transcription	Left Ventricle	heart
7	chr4:85821600-85858400	Weak transcription	Pancreas	Pancrea
8	chr4:85822600-85844800	Weak transcription	Placenta	Placenta
9	chr4:85825400-85848600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr4:85825400-85848600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr4:85825600-85848800	Weak transcription	Fetal Muscle Trunk	muscle
12	chr4:85825600-85849000	Weak transcription	Fetal Intestine Large	intestine
13	chr4:85825600-85849000	Weak transcription	Fetal Muscle Leg	muscle
14	chr4:85826200-85845400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr4:85826400-85849200	Weak transcription	Fetal Stomach	stomach
16	chr4:85827200-85848800	Weak transcription	Ovary	ovary
17	chr4:85829200-85850000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr4:85829200-85866200	Weak transcription	Spleen	Spleen
19	chr4:85834600-85845600	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr4:85835000-85848400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr4:85835200-85848400	Weak transcription	Fetal Lung	lung
22	chr4:85837600-85845600	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr4:85837600-85858400	Weak transcription	Fetal Brain Female	brain
24	chr4:85837600-85859200	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr4:85837800-85845600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr4:85837800-85849800	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr4:85837800-85849800	Weak transcription	Fetal Kidney	kidney
28	chr4:85837800-85853200	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr4:85837800-85858000	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr4:85838200-85848400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr4:85838200-85848600	Weak transcription	Brain Germinal Matrix	brain
32	chr4:85838400-85853800	Weak transcription	Fetal Heart	heart
33	chr4:85838600-85848600	Weak transcription	Aorta	Aorta
34	chr4:85838600-85858600	Weak transcription	Liver	Liver
35	chr4:85838600-85858600	Weak transcription	Psoas Muscle	Psoas
36	chr4:85839200-85846600	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr4:85839600-85858400	Weak transcription	Rectal Mucosa Donor 29	rectum
38	chr4:85839800-85845400	Weak transcription	Brain Hippocampus Middle	brain
39	chr4:85839800-85845400	Weak transcription	Brain Substantia Nigra	brain
40	chr4:85839800-85848600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr4:85840000-85845800	Weak transcription	Fetal Brain Male	brain
42	chr4:85840200-85845400	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr4:85840200-85848800	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr4:85840400-85848800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr4:85842000-85844800	Weak transcription	Brain Angular Gyrus	brain
46	chr4:85842000-85848600	Weak transcription	Gastric	stomach
47	chr4:85842200-85845000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr4:85842200-85845600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr4:85842200-85845600	Weak transcription	Brain Cingulate Gyrus	brain
50	chr4:85842200-85848400	Weak transcription	Primary monocytes fromperipheralblood	blood

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