Variant report

Variant	rs16840028
Chromosome Location	chr1:161990106-161990107
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:161988408..161990342-chr1:161996489..161998444,2	K562	blood:
2	chr1:161983872..161987361-chr1:161988391..161990751,3	K562	blood:
3	chr1:161989258..161991462-chr1:161992254..161993914,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000162745	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16839823	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58172457	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59345375	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73021283	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73021287	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv33393	chr1:161478681-162080327	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
2	nsv464206	chr1:161798239-162067447	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS 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	nsv470744	chr1:161798239-162067447	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv548077	chr1:161798239-162067447	Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv1007108	chr1:161925814-162002917	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv831747	chr1:161926367-162103311	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:161979200-161993200	Weak transcription	Gastric	stomach
2	chr1:161982600-161990600	Weak transcription	Rectal Smooth Muscle	rectum
3	chr1:161983000-161991000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr1:161985000-161990800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr1:161985200-161990800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr1:161985200-161990800	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr1:161985800-161990800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr1:161986800-161993000	Weak transcription	Spleen	Spleen
9	chr1:161988000-161990200	Enhancers	Brain Germinal Matrix	brain
10	chr1:161988000-161991000	Enhancers	Fetal Heart	heart
11	chr1:161988000-161992400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr1:161988200-161990200	Enhancers	Aorta	Aorta
13	chr1:161988200-161990200	Enhancers	Right Atrium	heart
14	chr1:161988200-161991200	Enhancers	Muscle Satellite Cultured Cells	--
15	chr1:161988200-161991200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr1:161988200-161991200	Enhancers	Left Ventricle	heart
17	chr1:161988400-161991200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr1:161988400-161991200	Enhancers	Right Ventricle	heart
19	chr1:161988400-161991200	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr1:161988600-161990800	Enhancers	HSMMtube	muscle
21	chr1:161988600-161990800	Enhancers	NHDF-Ad	bronchial
22	chr1:161988600-161991000	Enhancers	Duodenum Smooth Muscle	Duodenum
23	chr1:161988600-161991800	Enhancers	NHLF	lung
24	chr1:161988800-161990200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
25	chr1:161988800-161990200	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
26	chr1:161988800-161991000	Enhancers	HSMM	muscle
27	chr1:161988800-161991000	Enhancers	Osteobl	bone
28	chr1:161989000-161990200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr1:161989000-161990400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr1:161989400-161990800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr1:161989400-161990800	Enhancers	Adipose Nuclei	Adipose
32	chr1:161989400-161991200	Weak transcription	Placenta	Placenta
33	chr1:161989400-161992400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr1:161989400-161993000	Weak transcription	HUVEC	blood vessel
35	chr1:161989600-161990800	Weak transcription	Colon Smooth Muscle	Colon
36	chr1:161989600-161991400	Weak transcription	NH-A	brain
37	chr1:161989600-161991800	Weak transcription	Brain Angular Gyrus	brain
38	chr1:161989600-161992000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr1:161989600-161992400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr1:161989600-161992600	Weak transcription	Ovary	ovary
41	chr1:161989600-161993000	Weak transcription	Brain Substantia Nigra	brain
42	chr1:161989800-161990200	Enhancers	Fetal Stomach	stomach
43	chr1:161989800-161990800	Weak transcription	Lung	lung
44	chr1:161989800-161991000	Weak transcription	Brain Hippocampus Middle	brain
45	chr1:161989800-161992600	Weak transcription	Brain Cingulate Gyrus	brain
46	chr1:161989800-161992600	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr1:161989800-161993000	Weak transcription	Pancreas	Pancrea
48	chr1:161990000-161990200	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
49	chr1:161990000-161990400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr1:161990000-161990800	Enhancers	Fetal Muscle Trunk	muscle

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