Variant report

Variant	rs72858090
Chromosome Location	chr1:9989081-9989082
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:9988737..9991346-chr1:10009208..10011504,2	K562	blood:
2	chr1:9970332..9972521-chr1:9989080..9990638,2	K562	blood:
3	chr1:9970332..9972521-chr1:9987991..9990638,3	K562	blood:
4	chr1:9987221..9989617-chr1:10002378..10005088,3	K562	blood:

Variant related genes	Relation type
ENSG00000178585	Chromatin interaction
ENSG00000228150	Chromatin interaction
ENSG00000162441	Chromatin interaction
ENSG00000173614	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs11580158	0.90[ASN][1000 genomes]
rs3811458	0.95[ASN][1000 genomes]
rs3849282	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58751907	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72859558	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 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	nsv871610	chr1:9655795-10008221	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	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
4	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
5	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
6	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
7	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
8	nsv534854	chr1:9964726-10001012	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	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
10	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
11	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:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:9971400-9993600	Weak transcription	Aorta	Aorta
2	chr1:9971400-10002000	Weak transcription	Small Intestine	intestine
3	chr1:9971600-9991200	Weak transcription	NHEK	skin
4	chr1:9971800-9991800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr1:9972600-10002200	Weak transcription	Right Atrium	heart
6	chr1:9972800-9989600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr1:9975200-10002600	Weak transcription	Stomach Mucosa	stomach
8	chr1:9977000-9991800	Weak transcription	Brain Germinal Matrix	brain
9	chr1:9978200-9990200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr1:9980400-9990200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr1:9981000-9989400	Weak transcription	Left Ventricle	heart
12	chr1:9982800-9989600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr1:9983200-9989200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr1:9983200-10002200	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr1:9983200-10002400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr1:9983600-10002400	Weak transcription	Fetal Heart	heart
17	chr1:9983600-10002400	Weak transcription	Right Ventricle	heart
18	chr1:9984000-10002200	Weak transcription	HMEC	breast
19	chr1:9984600-9996400	Weak transcription	NHDF-Ad	bronchial
20	chr1:9984600-10002600	Weak transcription	Esophagus	oesophagus
21	chr1:9985200-9996200	Weak transcription	Hela-S3	cervix
22	chr1:9985600-9989200	Enhancers	HepG2	liver
23	chr1:9985800-9996200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr1:9986000-9992000	Weak transcription	Gastric	stomach
25	chr1:9986600-9989200	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr1:9986600-9996800	Strong transcription	Primary T helper cells fromperipheralblood	blood
27	chr1:9986800-9991400	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr1:9986800-10000200	Strong transcription	Primary T cells from cord blood	blood
29	chr1:9987000-9989600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr1:9987000-9992400	Strong transcription	Fetal Brain Female	brain
31	chr1:9987000-9993600	Weak transcription	Fetal Kidney	kidney
32	chr1:9987000-9996800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr1:9987000-10002200	Weak transcription	Fetal Brain Male	brain
34	chr1:9987200-9989200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr1:9987200-9989200	Weak transcription	Primary monocytes fromperipheralblood	blood
36	chr1:9987200-9989200	Weak transcription	HSMMtube	muscle
37	chr1:9987200-9997200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr1:9987200-10002200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
39	chr1:9987400-9989200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr1:9987400-9989600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr1:9987400-9991800	Strong transcription	Fetal Intestine Small	intestine
42	chr1:9987400-10000400	Strong transcription	Fetal Stomach	stomach
43	chr1:9987400-10002000	Weak transcription	Colonic Mucosa	Colon
44	chr1:9987600-9989400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr1:9987600-9995600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr1:9987600-9999400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
47	chr1:9987800-9989200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr1:9987800-9991600	Strong transcription	Fetal Intestine Large	intestine
49	chr1:9987800-9996400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr1:9987800-9996600	Strong transcription	Adipose Nuclei	Adipose

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