Variant report

Variant	rs28610039
Chromosome Location	chr11:86516130-86516131
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:86168596..86172615-chr11:86512849..86516301,3	MCF-7	breast:
2	chr11:86194046..86196274-chr11:86514380..86517149,2	MCF-7	breast:
3	chr11:86411235..86420303-chr11:86507153..86518645,29	MCF-7	breast:

Variant related genes	Relation type
ENSG00000254731	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs12098883	1.00[AMR][1000 genomes]
rs55952841	1.00[AMR][1000 genomes]
rs56166229	1.00[AMR][1000 genomes]
rs56854149	1.00[AMR][1000 genomes]
rs57256139	1.00[AMR][1000 genomes]
rs57359459	1.00[AMR][1000 genomes]
rs57474351	1.00[AMR][1000 genomes]
rs58150495	1.00[AMR][1000 genomes]
rs58710282	1.00[AMR][1000 genomes]
rs58869389	1.00[AMR][1000 genomes]
rs59841049	1.00[AMR][1000 genomes]
rs60587481	1.00[AMR][1000 genomes]
rs61366494	1.00[AMR][1000 genomes]
rs61595397	1.00[AMR][1000 genomes]
rs73524236	1.00[AMR][1000 genomes]
rs73524238	1.00[AMR][1000 genomes]
rs73524243	1.00[AMR][1000 genomes]
rs73524249	1.00[AMR][1000 genomes]
rs73524251	1.00[AMR][1000 genomes]
rs73524254	1.00[AMR][1000 genomes]
rs73524262	1.00[AMR][1000 genomes]
rs73524267	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	esv2756074	chr11:86456552-86729552	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv523704	chr11:86508928-86528437	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv2760199	chr11:86512312-86531118	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86512000-86527000	Weak transcription	Spleen	Spleen
2	chr11:86512600-86518600	Weak transcription	Small Intestine	intestine
3	chr11:86512600-86520600	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr11:86512800-86516200	Weak transcription	Fetal Heart	heart
5	chr11:86512800-86516800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr11:86512800-86517400	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr11:86512800-86518400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr11:86512800-86522800	Weak transcription	Pancreas	Pancrea
9	chr11:86513200-86519200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr11:86513400-86517200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr11:86513400-86520400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr11:86513600-86517600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr11:86513600-86518600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr11:86513600-86518600	Weak transcription	Lung	lung
15	chr11:86513600-86525600	Weak transcription	Colonic Mucosa	Colon
16	chr11:86513800-86516200	Weak transcription	Adipose Nuclei	Adipose
17	chr11:86513800-86522200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr11:86513800-86522600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr11:86514000-86516200	Weak transcription	Fetal Stomach	stomach
20	chr11:86514000-86516400	Weak transcription	Stomach Mucosa	stomach
21	chr11:86514000-86516600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr11:86514000-86517200	Enhancers	NHLF	lung
23	chr11:86514000-86518200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr11:86514000-86518600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr11:86514000-86523200	Weak transcription	Psoas Muscle	Psoas
26	chr11:86514000-86525400	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr11:86514000-86530000	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr11:86514200-86517600	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr11:86514200-86520400	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr11:86514200-86525600	Weak transcription	Fetal Lung	lung
31	chr11:86514400-86516800	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr11:86514400-86517200	Transcr. at gene 5' and 3'	A549	lung
33	chr11:86514600-86521400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
34	chr11:86514800-86516200	Transcr. at gene 5' and 3'	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr11:86514800-86516400	Genic enhancers	NHEK	skin
36	chr11:86514800-86517400	Enhancers	Osteobl	bone
37	chr11:86514800-86517600	Enhancers	NHDF-Ad	bronchial
38	chr11:86514800-86518200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr11:86514800-86519200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr11:86515000-86516200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr11:86515000-86516200	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr11:86515000-86516400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr11:86515000-86517000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr11:86515000-86517600	Enhancers	HMEC	breast
45	chr11:86515000-86519600	Weak transcription	Fetal Brain Male	brain
46	chr11:86515000-86520000	Genic enhancers	Hela-S3	cervix
47	chr11:86515200-86516200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr11:86515200-86517000	Weak transcription	Pancreatic Islets	Pancreatic Islet
49	chr11:86515200-86519000	Enhancers	Colon Smooth Muscle	Colon
50	chr11:86515400-86517400	Genic enhancers	NH-A	brain

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