Variant report

Variant	rs10039709
Chromosome Location	chr5:154090511-154090512
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	IRF1	chr5:154090493-154090682	K562	blood:	n/a	chr5:154090561-154090572 chr5:154090557-154090571 chr5:154090559-154090572 chr5:154090562-154090573 chr5:154090561-154090571 chr5:154090559-154090572 chr5:154090560-154090577 chr5:154090559-154090572 chr5:154090563-154090577 chr5:154090561-154090575
2	IRF1	chr5:154090402-154090738	K562	blood:	n/a	chr5:154090561-154090572 chr5:154090557-154090571 chr5:154090559-154090572 chr5:154090562-154090573 chr5:154090561-154090571 chr5:154090559-154090572 chr5:154090560-154090577 chr5:154090559-154090572 chr5:154090563-154090577 chr5:154090561-154090575

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:154082225..154089110-chr5:154090425..154094066,7	MCF-7	breast:
2	chr5:154090008..154095548-chr5:154132332..154137735,10	MCF-7	breast:

Variant related genes	Relation type
LARP1	TF binding region
ENSG00000155506	Chromatin interaction
ENSG00000263478	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10051493	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10058604	0.92[ASN][1000 genomes]
rs10073561	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1972618	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2052448	0.80[EUR][1000 genomes]
rs3893695	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4117784	0.85[CHB][hapmap];0.94[CHD][hapmap];0.94[GIH][hapmap];0.95[JPT][hapmap];0.93[LWK][hapmap];0.80[MKK][hapmap];0.95[ASN][1000 genomes]
rs4958382	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs4958384	0.80[EUR][1000 genomes]
rs4958385	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs4958387	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4958759	0.84[CHB][hapmap];0.81[EUR][1000 genomes]
rs4958760	0.85[CHB][hapmap]
rs4958761	1.00[CEU][hapmap];0.84[CHB][hapmap];0.90[GIH][hapmap];0.80[TSI][hapmap];0.82[EUR][1000 genomes]
rs4958762	0.85[CHB][hapmap]
rs4958765	1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.87[MEX][hapmap];0.82[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs4958767	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6580102	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6580103	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs6580104	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6580107	0.80[EUR][1000 genomes]
rs6580108	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6580109	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6580110	0.85[EUR][1000 genomes]
rs6580111	1.00[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6868098	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6878543	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs749777	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.91[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7710331	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7715775	0.80[EUR][1000 genomes]
rs7721183	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7736062	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs918365	0.80[CEU][hapmap]
rs9324791	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9324792	1.00[CEU][hapmap];0.89[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.86[LWK][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs965235	1.00[CEU][hapmap];0.87[GIH][hapmap];0.80[TSI][hapmap];0.82[EUR][1000 genomes]

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:154071400-154093400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr5:154072200-154092600	Weak transcription	Adipose Nuclei	Adipose
3	chr5:154072400-154091800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr5:154074200-154108600	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr5:154074200-154120000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr5:154077200-154091600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr5:154077400-154091800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr5:154077400-154091800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr5:154081400-154091800	Weak transcription	Fetal Intestine Small	intestine
10	chr5:154081600-154092000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr5:154081800-154091800	Weak transcription	Esophagus	oesophagus
12	chr5:154082400-154091600	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr5:154082400-154091800	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr5:154083000-154092200	Weak transcription	Left Ventricle	heart
15	chr5:154086400-154091400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr5:154086600-154092000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr5:154087800-154092600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr5:154088000-154092000	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr5:154088600-154091800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr5:154088600-154098200	Weak transcription	Right Atrium	heart
21	chr5:154088800-154091600	Weak transcription	Duodenum Mucosa	Duodenum
22	chr5:154088800-154091600	Weak transcription	HepG2	liver
23	chr5:154088800-154091800	Weak transcription	Hela-S3	cervix
24	chr5:154088800-154091800	Weak transcription	NHEK	skin
25	chr5:154088800-154092000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr5:154088800-154092200	Weak transcription	K562	blood
27	chr5:154088800-154092600	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr5:154089000-154092000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr5:154089000-154092400	Weak transcription	HMEC	breast
30	chr5:154089000-154092600	Weak transcription	NHDF-Ad	bronchial
31	chr5:154089000-154093400	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr5:154089200-154092600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr5:154089400-154091000	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr5:154089400-154091800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr5:154089600-154091800	Weak transcription	Liver	Liver
36	chr5:154089600-154092600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr5:154089600-154093000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr5:154089600-154093200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr5:154089800-154091000	Weak transcription	H1 Cell Line	embryonic stem cell
40	chr5:154089800-154091800	Weak transcription	Lung	lung
41	chr5:154089800-154092000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr5:154089800-154092000	Weak transcription	Right Ventricle	heart
43	chr5:154090000-154091000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr5:154090000-154092400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr5:154090000-154093200	Weak transcription	Primary monocytes fromperipheralblood	blood
46	chr5:154090400-154091400	Enhancers	iPS-20b Cell Line	embryonic stem cell

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