Variant report

Variant	rs1660732
Chromosome Location	chr1:10010885-10010886
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:10008573..10013502-chr1:10090291..10096219,9	MCF-7	breast:
2	chr1:9970587..9972464-chr1:10010441..10012006,2	K562	blood:
3	chr1:10010235..10011004-chr1:10092319..10093175,4	MCF-7	breast:
4	chr1:10009350..10011460-chr1:10068351..10069869,2	K562	blood:
5	chr1:10010111..10010962-chr1:10092219..10093003,3	MCF-7	breast:
6	chr1:10010481..10011034-chr1:10212792..10213669,3	K562	blood:
7	chr1:10009323..10011578-chr1:10096303..10099000,2	MCF-7	breast:
8	chr1:9988737..9991346-chr1:10009208..10011504,2	K562	blood:
9	chr1:10009468..10012009-chr1:10018654..10021337,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000130939	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10746493	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10864440	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11121507	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11584113	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12131803	0.81[AFR][1000 genomes]
rs1220390	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1660723	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2788606	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4561042	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4846186	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6657844	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7525933	0.97[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3385337	chr1:9105242-10082223	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	549 gene(s)	inside rSNPs	diseases
2	esv3417409	chr1:9683992-10241703	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv3372906	chr1:9838995-10052992	Genic enhancers Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv1012469	chr1:9925714-10147796	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
5	nsv1012301	chr1:9963962-10118393	Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	nsv534853	chr1:9963962-10118393	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
7	nsv1001742	chr1:9971776-10116767	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
8	nsv1005461	chr1:9972921-10038862	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
9	nsv534855	chr1:9972921-10038862	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:10004000-10034000	Weak transcription	Aorta	Aorta
2	chr1:10004200-10011000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr1:10004200-10019400	Weak transcription	NH-A	brain
4	chr1:10004200-10021000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:10004200-10033800	Weak transcription	Gastric	stomach
6	chr1:10004400-10018200	Weak transcription	NHLF	lung
7	chr1:10004400-10021200	Weak transcription	HSMM	muscle
8	chr1:10004400-10031600	Weak transcription	Fetal Intestine Large	intestine
9	chr1:10004600-10021000	Weak transcription	HSMMtube	muscle
10	chr1:10004600-10032400	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr1:10004800-10031600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr1:10004800-10032200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr1:10004800-10032400	Weak transcription	Colon Smooth Muscle	Colon
14	chr1:10005600-10015000	Strong transcription	Fetal Intestine Small	intestine
15	chr1:10008000-10014200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr1:10008000-10031800	Weak transcription	Lung	lung
17	chr1:10008000-10032000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr1:10008000-10032200	Weak transcription	Colonic Mucosa	Colon
19	chr1:10008000-10035000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr1:10008200-10011600	Weak transcription	Spleen	Spleen
21	chr1:10008200-10032000	Weak transcription	Liver	Liver
22	chr1:10008200-10032200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr1:10008400-10031800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr1:10008400-10032000	Weak transcription	Duodenum Mucosa	Duodenum
25	chr1:10008400-10032200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr1:10008600-10031800	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr1:10008600-10033200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr1:10008600-10035600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr1:10009000-10013000	Enhancers	Primary monocytes fromperipheralblood	blood
30	chr1:10009000-10014200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr1:10009600-10011800	Enhancers	Primary hematopoietic stem cells	blood
32	chr1:10009600-10012000	Enhancers	Primary hematopoietic stem cells short term culture	blood
33	chr1:10009800-10011400	Enhancers	Brain Cingulate Gyrus	brain
34	chr1:10009800-10011400	Enhancers	Brain Substantia Nigra	brain
35	chr1:10010000-10011000	Enhancers	Primary T helper naive cells from peripheral blood	blood
36	chr1:10010000-10011000	Enhancers	Primary T helper cells fromperipheralblood	blood
37	chr1:10010000-10011000	Enhancers	Cortex derived primary cultured neurospheres	brain
38	chr1:10010000-10011000	Enhancers	Duodenum Smooth Muscle	Duodenum
39	chr1:10010000-10011200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr1:10010000-10011200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
41	chr1:10010000-10011400	Enhancers	Primary T helper cells PMA-I stimulated	--
42	chr1:10010000-10011400	Enhancers	Adipose Nuclei	Adipose
43	chr1:10010000-10011800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
44	chr1:10010200-10011000	Enhancers	Primary T cells fromperipheralblood	blood
45	chr1:10010200-10011000	Enhancers	Left Ventricle	heart
46	chr1:10010200-10011000	Enhancers	Right Atrium	heart
47	chr1:10010200-10011200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
48	chr1:10010200-10011200	Enhancers	Brain Inferior Temporal Lobe	brain
49	chr1:10010200-10011400	Enhancers	Primary T killer memory cells from peripheral blood	blood
50	chr1:10010200-10011800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood

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