Variant report

Variant	rs11858659
Chromosome Location	chr15:57999304-57999305
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57998395..57999364-chr7:32535088..32535602,2	Hela-S3	cervix:
2	chr15:57998806..57999379-chr6:30457149..30457654,2	Hela-S3	cervix:

Variant related genes	Relation type
ENSG00000204592	Chromatin interaction
ENSG00000105778	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11854253	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854731	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11857147	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977648	0.93[EUR][1000 genomes]
rs28421709	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7181215	1.00[CEU][hapmap];0.86[AMR][1000 genomes]
rs7182316	0.82[CEU][hapmap]
rs72745565	0.82[EUR][1000 genomes]
rs72745568	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72745576	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72745583	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72745586	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72745594	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72747204	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8034567	0.82[CEU][hapmap];0.95[EUR][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	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv530682	chr15:57912502-58108285	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1038667	chr15:57933076-58481870	Flanking Active TSS Enhancers Genic enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv542400	chr15:57933076-58481870	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	esv3415316	chr15:57999115-58000931	Weak transcription Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57998200-57999600	Active TSS	Fetal Brain Male	brain
2	chr15:57998200-57999600	Active TSS	Rectal Mucosa Donor 29	rectum
3	chr15:57998200-57999800	Active TSS	Colon Smooth Muscle	Colon
4	chr15:57998200-57999800	Active TSS	Pancreatic Islets	Pancreatic Islet
5	chr15:57998200-57999800	Active TSS	Rectal Mucosa Donor 31	rectum
6	chr15:57998200-57999800	Active TSS	Rectal Smooth Muscle	rectum
7	chr15:57998200-58000000	Active TSS	HUES64 Cell Line	embryonic stem cell
8	chr15:57998200-58000000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr15:57998200-58000000	Active TSS	Primary hematopoietic stem cells short term culture	blood
10	chr15:57998200-58000000	Active TSS	Brain Substantia Nigra	brain
11	chr15:57998200-58000000	Active TSS	Colonic Mucosa	Colon
12	chr15:57998200-58000600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr15:57998200-58001000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr15:57998200-58001400	Active TSS	Fetal Kidney	kidney
15	chr15:57998400-57999400	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
16	chr15:57998400-57999800	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr15:57998400-57999800	Active TSS	Liver	Liver
18	chr15:57998400-57999800	Active TSS	Esophagus	oesophagus
19	chr15:57998400-57999800	Active TSS	Fetal Adrenal Gland	Adrenal Gland
20	chr15:57998400-57999800	Active TSS	Placenta	Placenta
21	chr15:57998400-58000000	Active TSS	ES-I3 Cell Line	embryonic stem cell
22	chr15:57998400-58000000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr15:57998400-58000000	Active TSS	Fetal Stomach	stomach
24	chr15:57998400-58000200	Active TSS	H9 Cell Line	embryonic stem cell
25	chr15:57998400-58000200	Active TSS	iPS-15b Cell Line	embryonic stem cell
26	chr15:57998400-58000200	Active TSS	Breast Myoepithelial Primary Cells	Breast
27	chr15:57998400-58000200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr15:57998400-58000200	Active TSS	Fetal Muscle Trunk	muscle
29	chr15:57998400-58000200	Active TSS	Ovary	ovary
30	chr15:57998400-58000200	Active TSS	HSMMtube	muscle
31	chr15:57998400-58000800	Active TSS	Aorta	Aorta
32	chr15:57998400-58000800	Active TSS	Right Atrium	heart
33	chr15:57998400-58000800	Active TSS	Right Ventricle	heart
34	chr15:57998600-57999400	Active TSS	Primary neutrophils fromperipheralblood	blood
35	chr15:57998600-57999400	Active TSS	Primary B cells from cord blood	blood
36	chr15:57998600-57999400	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
37	chr15:57998600-57999400	Active TSS	Adipose Nuclei	Adipose
38	chr15:57998600-57999600	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr15:57998600-57999600	Active TSS	Primary B cells from peripheral blood	blood
40	chr15:57998600-57999600	Active TSS	Primary T cells from cord blood	blood
41	chr15:57998600-57999600	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
42	chr15:57998600-57999600	Active TSS	Primary T killer naive cells fromperipheralblood	blood
43	chr15:57998600-57999600	Active TSS	Primary T killer memory cells from peripheral blood	blood
44	chr15:57998600-57999600	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr15:57998600-57999600	Active TSS	Brain Angular Gyrus	brain
46	chr15:57998600-57999600	Active TSS	Brain Cingulate Gyrus	brain
47	chr15:57998600-57999600	Active TSS	Duodenum Mucosa	Duodenum
48	chr15:57998600-57999600	Active TSS	Fetal Brain Female	brain
49	chr15:57998600-57999600	Active TSS	Skeletal Muscle Female	skeletal muscle
50	chr15:57998600-57999600	Active TSS	Spleen	Spleen

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