Variant report

Variant	rs35058853
Chromosome Location	chr3:136050764-136050765
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:136049332..136050837-chr3:136449297..136451050,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs12330258	0.86[AFR][1000 genomes]
rs28396702	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28812220	0.93[EUR][1000 genomes]
rs34165586	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34523567	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35375192	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs5026242	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55797013	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56251259	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6439638	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67214626	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6766450	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6776841	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6783337	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6785225	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6804194	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7622833	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9809184	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9811261	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9811490	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812513	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9819496	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9826146	0.93[EUR][1000 genomes]
rs9831321	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9833162	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9843348	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9843801	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9850383	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9853387	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9854328	0.81[EUR][1000 genomes]
rs9860801	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9868120	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9872326	0.94[EUR][1000 genomes]

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	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv948461	chr3:135969755-136349636	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv4025	chr3:136017458-136065622	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS	Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv877519	chr3:136035737-136279390	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135981200-136052000	Weak transcription	NH-A	brain
2	chr3:135999800-136061200	Weak transcription	Hela-S3	cervix
3	chr3:136018200-136051400	Weak transcription	A549	lung
4	chr3:136032800-136055400	Weak transcription	HUVEC	blood vessel
5	chr3:136039000-136072400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr3:136039200-136062400	Weak transcription	Fetal Heart	heart
7	chr3:136040200-136051200	Weak transcription	NHDF-Ad	bronchial
8	chr3:136040400-136062800	Weak transcription	Stomach Mucosa	stomach
9	chr3:136040600-136061400	Weak transcription	Small Intestine	intestine
10	chr3:136041000-136052800	Weak transcription	Fetal Kidney	kidney
11	chr3:136042400-136058200	Weak transcription	Psoas Muscle	Psoas
12	chr3:136042400-136078800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr3:136042600-136053200	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr3:136042600-136072600	Strong transcription	Dnd41	blood
15	chr3:136043400-136098600	Weak transcription	Fetal Brain Male	brain
16	chr3:136043600-136082000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr3:136043800-136070400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr3:136044800-136054600	Strong transcription	Brain Inferior Temporal Lobe	brain
19	chr3:136045200-136051600	Strong transcription	HSMM	muscle
20	chr3:136045200-136060800	Strong transcription	Liver	Liver
21	chr3:136045200-136062000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr3:136045600-136079200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr3:136046200-136051400	Weak transcription	Osteobl	bone
24	chr3:136046200-136060000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr3:136046600-136051400	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr3:136047000-136052200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr3:136047200-136052600	Weak transcription	Rectal Smooth Muscle	rectum
28	chr3:136047400-136052600	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr3:136047600-136098000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr3:136047800-136052600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr3:136047800-136068200	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr3:136047800-136074800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
33	chr3:136048000-136052400	Weak transcription	Colonic Mucosa	Colon
34	chr3:136048000-136054200	Weak transcription	HMEC	breast
35	chr3:136048200-136051000	Weak transcription	Fetal Thymus	thymus
36	chr3:136048200-136051600	Weak transcription	Ovary	ovary
37	chr3:136048200-136052600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr3:136048200-136052600	Weak transcription	Fetal Lung	lung
39	chr3:136048200-136052800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr3:136048200-136053200	Weak transcription	Colon Smooth Muscle	Colon
41	chr3:136048200-136060200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
42	chr3:136048400-136051000	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr3:136048400-136051400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr3:136048400-136051400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr3:136048400-136052000	Weak transcription	Placenta	Placenta
46	chr3:136048400-136052400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr3:136048400-136062800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr3:136048600-136051400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr3:136048600-136052200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr3:136048800-136051000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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