Variant report

Variant	rs6563101
Chromosome Location	chr13:79959783-79959784
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:79959228..79961177-chr13:79966634..79969292,3	MCF-7	breast:
2	chr13:79958743..79963128-chr13:79965623..79969929,4	K562	blood:
3	chr13:79955549..79959842-chr13:79960157..79964525,5	K562	blood:
4	chr13:79955154..79956833-chr13:79959758..79961618,3	MCF-7	breast:
5	chr13:79959086..79961108-chr13:80114740..80116640,2	K562	blood:

Variant related genes	Relation type
ENSG00000252496	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs1324872	1.00[AMR][1000 genomes]
rs1328043	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1328044	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1328045	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1335376	1.00[AMR][1000 genomes]
rs1359411	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1408655	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1410330	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1410331	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1410333	0.86[AFR][1000 genomes]
rs1555731	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1571322	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1590466	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1749987	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1752645	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1853721	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1856995	1.00[AMR][1000 genomes]
rs1885817	1.00[AMR][1000 genomes]
rs1980882	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2147567	1.00[AMR][1000 genomes]
rs2265032	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2484341	1.00[AMR][1000 genomes]
rs2484342	1.00[AMR][1000 genomes]
rs2760109	1.00[AMR][1000 genomes]
rs2760110	1.00[AMR][1000 genomes]
rs2765081	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2783128	1.00[AMR][1000 genomes]
rs2991462	1.00[AMR][1000 genomes]
rs314691	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs314696	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs314697	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs314698	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs314699	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3861140	1.00[ASN][1000 genomes]
rs4052508	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs418177	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4300513	1.00[AMR][1000 genomes]
rs450755	1.00[AMR][1000 genomes]
rs4884128	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4885630	1.00[AMR][1000 genomes]
rs6563092	1.00[AMR][1000 genomes]
rs6563099	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6563102	1.00[AMR][1000 genomes]
rs6563103	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6563106	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6563108	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6563118	1.00[AMR][1000 genomes]
rs7324585	1.00[AMR][1000 genomes]
rs7325232	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7326625	1.00[ASN][1000 genomes]
rs7333651	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7334029	1.00[AMR][1000 genomes]
rs7334978	1.00[ASN][1000 genomes]
rs73566469	1.00[ASN][1000 genomes]
rs7993115	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7993478	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7994560	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7996740	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7996869	1.00[AMR][1000 genomes]
rs7998224	1.00[AMR][1000 genomes]
rs8001089	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8001822	1.00[AMR][1000 genomes]
rs927696	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9318630	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9318631	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9318637	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9530903	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9545056	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9545084	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9545096	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9545102	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9545105	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9545107	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9545111	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9601212	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900586	chr13:79892722-79968467	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv832657	chr13:79904978-80099108	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:79942000-79967400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr13:79946000-79960000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr13:79946400-79969200	Weak transcription	Fetal Kidney	kidney
4	chr13:79951200-79959800	Weak transcription	Fetal Heart	heart
5	chr13:79951200-79962200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr13:79951200-79979200	Weak transcription	Esophagus	oesophagus
7	chr13:79951400-79960000	Weak transcription	NHDF-Ad	bronchial
8	chr13:79951400-79962200	Weak transcription	Lung	lung
9	chr13:79951600-79960000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr13:79951600-79960000	Weak transcription	NH-A	brain
11	chr13:79951600-79965400	Weak transcription	Brain Angular Gyrus	brain
12	chr13:79951600-79969000	Weak transcription	Fetal Brain Male	brain
13	chr13:79951800-79960000	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr13:79951800-79961800	Weak transcription	Brain Germinal Matrix	brain
15	chr13:79951800-79978200	Weak transcription	Aorta	Aorta
16	chr13:79952000-79967200	Weak transcription	Brain Hippocampus Middle	brain
17	chr13:79952000-79967600	Weak transcription	Gastric	stomach
18	chr13:79952200-79960000	Weak transcription	Ovary	ovary
19	chr13:79952200-79967600	Weak transcription	Pancreas	Pancrea
20	chr13:79952200-79967600	Weak transcription	Spleen	Spleen
21	chr13:79952400-79960000	Weak transcription	NHLF	lung
22	chr13:79952400-79960000	Weak transcription	Osteobl	bone
23	chr13:79952400-79962200	Weak transcription	Psoas Muscle	Psoas
24	chr13:79952400-79963000	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr13:79952400-79963600	Weak transcription	Rectal Smooth Muscle	rectum
26	chr13:79952400-79966800	Weak transcription	Thymus	Thymus
27	chr13:79952400-79967000	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr13:79952400-79967200	Weak transcription	Brain Cingulate Gyrus	brain
29	chr13:79952400-79967200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr13:79952400-79967200	Weak transcription	Fetal Lung	lung
31	chr13:79952400-79967400	Weak transcription	Fetal Brain Female	brain
32	chr13:79952400-79967600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr13:79952400-79967600	Weak transcription	Left Ventricle	heart
34	chr13:79952400-79967600	Weak transcription	Right Ventricle	heart
35	chr13:79952400-79967800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr13:79952600-79966800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr13:79952600-79977800	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr13:79952800-79960000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr13:79952800-79966800	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr13:79952800-79966800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr13:79952800-79967200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr13:79952800-79967200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr13:79952800-79967800	Weak transcription	Fetal Stomach	stomach
44	chr13:79953000-79961400	Weak transcription	Liver	Liver
45	chr13:79953000-79967200	Weak transcription	Fetal Muscle Trunk	muscle
46	chr13:79953000-79967200	Weak transcription	Fetal Muscle Leg	muscle
47	chr13:79953000-79967400	Weak transcription	Placenta	Placenta
48	chr13:79953200-79960200	Weak transcription	HSMM	muscle
49	chr13:79953200-79967400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr13:79953400-79966800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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