Variant report

Variant	rs16825277
Chromosome Location	chr1:186354146-186354147
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:186344293..186346890-chr1:186353501..186357740,6	MCF-7	breast:
2	chr1:186352524..186355241-chr1:186393663..186395812,2	K562	blood:

Variant related genes	Relation type
ENSG00000157181	Chromatin interaction
ENSG00000047410	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10158395	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs10489394	0.89[AMR][1000 genomes]
rs10489395	0.89[AMR][1000 genomes]
rs10494585	1.00[ASW][hapmap];0.95[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs10494588	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13374242	0.89[AMR][1000 genomes]
rs13375943	0.86[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs13376114	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs16825179	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs16825187	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16825230	0.81[AMR][1000 genomes]
rs16825282	1.00[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16825292	0.86[ASW][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16825329	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16825448	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs16825457	0.89[AMR][1000 genomes]
rs1929094	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs2141392	0.83[YRI][hapmap];0.80[AFR][1000 genomes]
rs3934201	0.89[AMR][1000 genomes]
rs41393449	0.80[AFR][1000 genomes]
rs56888492	0.89[AMR][1000 genomes]
rs57020506	0.84[AFR][1000 genomes]
rs60957652	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs6425029	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs6673816	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs6679283	0.84[AFR][1000 genomes]
rs6688055	0.89[AMR][1000 genomes]
rs6695920	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7355203	0.89[AMR][1000 genomes]
rs7530502	0.85[YRI][hapmap];0.89[AMR][1000 genomes]
rs7547924	0.86[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.95[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	nsv1004481	chr1:186095854-186750968	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv535223	chr1:186095854-186750968	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	esv1822818	chr1:186301447-186441585	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1012164	chr1:186323867-186565995	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	esv2762201	chr1:186323879-186566007	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	nsv872589	chr1:186354146-186390303	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 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	chr1:186345400-186358000	Weak transcription	Left Ventricle	heart
2	chr1:186345400-186358600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr1:186345400-186359000	Weak transcription	Lung	lung
4	chr1:186345400-186371600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:186345400-186371600	Weak transcription	Esophagus	oesophagus
6	chr1:186345400-186371600	Weak transcription	Gastric	stomach
7	chr1:186345400-186390600	Weak transcription	Small Intestine	intestine
8	chr1:186345400-186398200	Weak transcription	Spleen	Spleen
9	chr1:186345800-186361200	Weak transcription	Aorta	Aorta
10	chr1:186345800-186377400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr1:186346000-186366800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr1:186346200-186357400	Weak transcription	Rectal Smooth Muscle	rectum
13	chr1:186346200-186357800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr1:186346200-186357800	Weak transcription	Brain Anterior Caudate	brain
15	chr1:186346200-186357800	Weak transcription	Fetal Kidney	kidney
16	chr1:186346200-186359000	Weak transcription	Brain Cingulate Gyrus	brain
17	chr1:186346200-186359000	Weak transcription	Ovary	ovary
18	chr1:186346200-186359000	Weak transcription	Thymus	Thymus
19	chr1:186346200-186360600	Weak transcription	Brain Substantia Nigra	brain
20	chr1:186346200-186361200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr1:186346200-186361200	Weak transcription	Pancreas	Pancrea
22	chr1:186346200-186361400	Weak transcription	Right Ventricle	heart
23	chr1:186346200-186365200	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr1:186346200-186365200	Weak transcription	Psoas Muscle	Psoas
25	chr1:186346200-186380400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr1:186346200-186388400	Weak transcription	Colonic Mucosa	Colon
27	chr1:186346400-186354400	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr1:186346400-186357800	Weak transcription	Brain Hippocampus Middle	brain
29	chr1:186346400-186359400	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr1:186346400-186359400	Weak transcription	Colon Smooth Muscle	Colon
31	chr1:186346400-186361000	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr1:186346400-186361200	Weak transcription	Brain Angular Gyrus	brain
33	chr1:186346400-186376000	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr1:186346400-186388000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr1:186346400-186390000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr1:186346600-186357400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr1:186346600-186357400	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr1:186346600-186359400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr1:186346800-186354600	Strong transcription	K562	blood
40	chr1:186346800-186357400	Weak transcription	Stomach Mucosa	stomach
41	chr1:186347000-186357200	Weak transcription	Primary hematopoietic stem cells	blood
42	chr1:186347200-186370800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr1:186347400-186368000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr1:186347400-186370400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
45	chr1:186347400-186370400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr1:186347600-186357800	Weak transcription	NHEK	skin
47	chr1:186347600-186358000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr1:186347600-186370800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr1:186348000-186359400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr1:186348000-186382000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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