Variant report

Variant	rs28733458
Chromosome Location	chr2:231083082-231083083
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	chr2:231081815..231083756-chr2:231088866..231091364,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000079263	Chromatin interaction
ENSG00000135899	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10167116	1.00[AMR][1000 genomes]
rs10168057	1.00[AMR][1000 genomes]
rs10174493	1.00[AMR][1000 genomes]
rs10183659	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10187268	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10197151	1.00[AFR][1000 genomes]
rs13384496	1.00[AFR][1000 genomes]
rs13390432	1.00[AMR][1000 genomes]
rs13392074	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13397352	1.00[AMR][1000 genomes]
rs13404885	1.00[AFR][1000 genomes]
rs6761254	0.90[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001562	chr2:230862717-231187043	Flanking Active TSS ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv536156	chr2:230862717-231187043	Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv498047	chr2:230951712-231250489	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv869834	chr2:231045013-231139827	Strong transcription Flanking Active TSS Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv998291	chr2:231045388-231136278	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv584666	chr2:231050715-231106621	Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	esv18000	chr2:231072978-231467847	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:231062600-231084200	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr2:231063000-231084000	Weak transcription	Hela-S3	cervix
3	chr2:231063200-231084000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr2:231064800-231084000	Weak transcription	Fetal Heart	heart
5	chr2:231066200-231083200	Weak transcription	HUVEC	blood vessel
6	chr2:231066200-231084400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr2:231067600-231084200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr2:231068200-231084400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr2:231068400-231084000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr2:231071800-231084200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr2:231073600-231084000	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr2:231074200-231084000	Weak transcription	Fetal Kidney	kidney
13	chr2:231076000-231084200	Weak transcription	Brain Angular Gyrus	brain
14	chr2:231076800-231084000	Weak transcription	NHDF-Ad	bronchial
15	chr2:231077400-231084000	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr2:231077400-231084000	Weak transcription	NH-A	brain
17	chr2:231077400-231084000	Weak transcription	Osteobl	bone
18	chr2:231077400-231084200	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr2:231077600-231084000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr2:231077800-231084000	Weak transcription	NHLF	lung
21	chr2:231078000-231084200	Weak transcription	Pancreas	Pancrea
22	chr2:231079000-231084000	Weak transcription	Brain Anterior Caudate	brain
23	chr2:231079200-231083200	Weak transcription	Stomach Smooth Muscle	stomach
24	chr2:231079200-231083800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr2:231079200-231084200	Weak transcription	Esophagus	oesophagus
26	chr2:231079800-231083200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr2:231079800-231084200	Weak transcription	Gastric	stomach
28	chr2:231080600-231083600	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr2:231080800-231084200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr2:231080800-231084200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr2:231081000-231083800	Enhancers	HMEC	breast
32	chr2:231081000-231084200	Weak transcription	Fetal Intestine Large	intestine
33	chr2:231081200-231083400	Enhancers	Small Intestine	intestine
34	chr2:231081200-231084200	Weak transcription	HSMM	muscle
35	chr2:231081400-231083200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr2:231081400-231083200	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr2:231081600-231083200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr2:231081600-231083200	Weak transcription	Fetal Lung	lung
39	chr2:231081600-231083600	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr2:231081600-231083800	Weak transcription	Fetal Stomach	stomach
41	chr2:231081600-231084000	Weak transcription	Right Ventricle	heart
42	chr2:231081600-231084000	Weak transcription	HSMMtube	muscle
43	chr2:231081600-231084200	Weak transcription	Aorta	Aorta
44	chr2:231081600-231084200	Weak transcription	Placenta	Placenta
45	chr2:231081600-231084200	Weak transcription	Left Ventricle	heart
46	chr2:231081600-231084200	Weak transcription	Lung	lung
47	chr2:231081800-231083600	Weak transcription	Fetal Muscle Trunk	muscle
48	chr2:231081800-231084200	Weak transcription	Spleen	Spleen
49	chr2:231082000-231083200	Enhancers	Fetal Intestine Small	intestine
50	chr2:231082200-231083200	Weak transcription	Fetal Muscle Leg	muscle

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