Variant report

Variant	rs58898502
Chromosome Location	chr4:102196584-102196585
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:102195924..102197828-chr4:102197839..102200644,3	MCF-7	breast:
2	chr4:102195298..102197332-chr4:102200967..102203266,2	MCF-7	breast:
3	chr4:102194719..102197213-chr4:102198296..102200736,2	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10004830	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10015480	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10019627	1.00[EUR][1000 genomes]
rs10027301	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17030915	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17030959	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17030989	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28379119	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28421266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28464050	1.00[EUR][1000 genomes]
rs28491829	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28534411	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28542998	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28553282	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28614035	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28638143	1.00[EUR][1000 genomes]
rs28640942	1.00[EUR][1000 genomes]
rs28675750	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28723066	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58084948	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58598913	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72919782	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72919785	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9998913	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv999741	chr4:102009017-102454115	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv537199	chr4:102009017-102454115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1004766	chr4:102009017-102713765	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537200	chr4:102009017-102713765	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1011351	chr4:102056024-102450302	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:102180600-102197000	Weak transcription	Left Ventricle	heart
2	chr4:102180600-102203000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr4:102184000-102203200	Weak transcription	Primary hematopoietic stem cells	blood
4	chr4:102184400-102199600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr4:102184600-102199400	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr4:102188800-102203200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr4:102191400-102202200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr4:102191600-102200400	Weak transcription	Colon Smooth Muscle	Colon
9	chr4:102192800-102208600	Weak transcription	Fetal Kidney	kidney
10	chr4:102193000-102198800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr4:102193000-102198800	Weak transcription	Small Intestine	intestine
12	chr4:102193000-102199600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr4:102193000-102203400	Weak transcription	Brain Angular Gyrus	brain
14	chr4:102193600-102198400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr4:102193800-102198400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr4:102193800-102199600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr4:102193800-102201800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr4:102194000-102205200	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr4:102194200-102196600	Weak transcription	Brain Anterior Caudate	brain
20	chr4:102194200-102203000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr4:102195400-102196800	Enhancers	A549	lung
22	chr4:102195400-102199400	Weak transcription	Psoas Muscle	Psoas
23	chr4:102195400-102200600	Weak transcription	Gastric	stomach
24	chr4:102195400-102203400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr4:102195800-102197400	Enhancers	Stomach Mucosa	stomach
26	chr4:102196000-102196600	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr4:102196000-102196800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr4:102196000-102196800	Enhancers	Primary B cells from cord blood	blood
29	chr4:102196000-102196800	Enhancers	HepG2	liver
30	chr4:102196000-102197000	Enhancers	HUVEC	blood vessel
31	chr4:102196200-102196600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr4:102196200-102196600	Enhancers	Primary monocytes fromperipheralblood	blood
33	chr4:102196200-102196600	Enhancers	Primary neutrophils fromperipheralblood	blood
34	chr4:102196200-102196600	Enhancers	Primary hematopoietic stem cells short term culture	blood
35	chr4:102196200-102196600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr4:102196200-102196600	Enhancers	Fetal Intestine Small	intestine
37	chr4:102196200-102196600	Enhancers	Rectal Mucosa Donor 31	rectum
38	chr4:102196200-102196600	Flanking Active TSS	GM12878-XiMat	blood
39	chr4:102196200-102196800	Enhancers	NH-A	brain
40	chr4:102196200-102197200	Enhancers	Primary B cells from peripheral blood	blood
41	chr4:102196200-102197200	Enhancers	Liver	Liver
42	chr4:102196200-102197400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
43	chr4:102196200-102197400	Enhancers	Ovary	ovary
44	chr4:102196400-102196600	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr4:102196400-102196600	Flanking Active TSS	Duodenum Mucosa	Duodenum
46	chr4:102196400-102196600	Enhancers	Right Atrium	heart
47	chr4:102196400-102196600	Enhancers	HSMMtube	muscle
48	chr4:102196400-102196800	Enhancers	Aorta	Aorta
49	chr4:102196400-102197000	Enhancers	Osteobl	bone
50	chr4:102196400-102197400	Enhancers	Pancreas	Pancrea

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