Variant report

Variant	rs10066173
Chromosome Location	chr5:108063919-108063920
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:10)
LncRNA
region (count:4)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:62901235..62902370-chr5:108063481..108064306,3	Hela-S3	cervix:
2	chr5:108060235..108074407-chr5:108078172..108087811,48	K562	blood:
3	chr5:108062598..108065696-chr5:108743430..108747045,3	K562	blood:
4	chr11:65266347..65266939-chr5:108063228..108064155,2	Hela-S3	cervix:
5	chr5:108062273..108066431-chr5:108081834..108086243,5	MCF-7	breast:
6	chr20:44441112..44441718-chr5:108063800..108064394,2	HCT-116	colon:
7	chr5:108062575..108065883-chr5:108081229..108085721,5	MCF-7	breast:
8	chr16:4233359..4234054-chr5:108063372..108064026,2	Hela-S3	cervix:
9	chr5:108063588..108065189-chr5:109024997..109026908,2	MCF-7	breast:
10	chr5:108059312..108068052-chr5:108079113..108087366,42	K562	blood:

(count:4 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FER-1	chr5:108063807-108063994	XLOC_004501
2	lnc-FBXL17-2	chr5:108063807-108063994	NONHSAT103127
3	lnc-FBXL17-2	chr5:108063526-108063962	NONHSAT147354
4	lnc-FBXL17-2	chr5:108063526-108063961	ENSG00000272523.1

No data

Variant related genes	Relation type
ENSG00000162607	Chromatin interaction
ENSG00000175063	Chromatin interaction
ENSG00000251562	Chromatin interaction
ENSG00000151422	Chromatin interaction
ENSG00000198961	Chromatin interaction
ENSG00000112893	Chromatin interaction
ENSG00000263105	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10039132	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10061811	0.84[ASN][1000 genomes]
rs10214241	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11741855	1.00[ASN][1000 genomes]
rs11748534	1.00[ASN][1000 genomes]
rs1423456	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17161463	0.96[ASN][1000 genomes]
rs17161466	0.88[ASN][1000 genomes]
rs17161476	0.80[AMR][1000 genomes]
rs17163941	0.84[ASN][1000 genomes]
rs28376017	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3805600	0.96[ASN][1000 genomes]
rs3805601	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3828655	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62361298	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62361300	0.96[ASN][1000 genomes]
rs6859105	0.84[ASN][1000 genomes]
rs6859750	0.84[ASN][1000 genomes]
rs6869591	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6870408	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7711892	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:108062200-108064000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr5:108062200-108065000	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr5:108062400-108065000	Active TSS	Brain Hippocampus Middle	brain
4	chr5:108062600-108064200	Active TSS	iPS-20b Cell Line	embryonic stem cell
5	chr5:108062600-108064200	Active TSS	Rectal Mucosa Donor 29	rectum
6	chr5:108062600-108064400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr5:108062600-108064400	Active TSS	Fetal Intestine Large	intestine
8	chr5:108062600-108064600	Active TSS	Fetal Intestine Small	intestine
9	chr5:108062600-108064800	Active TSS	Pancreatic Islets	Pancreatic Islet
10	chr5:108062600-108065000	Active TSS	Stomach Smooth Muscle	stomach
11	chr5:108062800-108064200	Active TSS	Colonic Mucosa	Colon
12	chr5:108062800-108064400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr5:108062800-108064400	Active TSS	Colon Smooth Muscle	Colon
14	chr5:108062800-108064600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
15	chr5:108062800-108064600	Active TSS	H9 Cell Line	embryonic stem cell
16	chr5:108062800-108064600	Active TSS	Fetal Stomach	stomach
17	chr5:108062800-108064600	Active TSS	A549	lung
18	chr5:108062800-108064800	Active TSS	Aorta	Aorta
19	chr5:108062800-108064800	Active TSS	Duodenum Smooth Muscle	Duodenum
20	chr5:108062800-108065000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr5:108062800-108065000	Active TSS	Brain Anterior Caudate	brain
22	chr5:108062800-108065000	Active TSS	Brain Cingulate Gyrus	brain
23	chr5:108062800-108065000	Active TSS	Brain Inferior Temporal Lobe	brain
24	chr5:108062800-108065000	Active TSS	Right Atrium	heart
25	chr5:108062800-108065000	Active TSS	K562	blood
26	chr5:108063000-108064000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr5:108063000-108064000	Active TSS	Placenta Amnion	Placenta Amnion
28	chr5:108063000-108064200	Active TSS	Duodenum Mucosa	Duodenum
29	chr5:108063000-108064200	Active TSS	HSMMtube	muscle
30	chr5:108063000-108064400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr5:108063000-108064400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr5:108063000-108064400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr5:108063000-108064400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
34	chr5:108063000-108064400	Active TSS	Brain Angular Gyrus	brain
35	chr5:108063000-108064400	Active TSS	Lung	lung
36	chr5:108063000-108064600	Active TSS	Fetal Muscle Trunk	muscle
37	chr5:108063000-108064600	Active TSS	Right Ventricle	heart
38	chr5:108063000-108064600	Active TSS	HSMM	muscle
39	chr5:108063000-108064800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr5:108063000-108064800	Active TSS	Psoas Muscle	Psoas
41	chr5:108063000-108064800	Flanking Active TSS	Dnd41	blood
42	chr5:108063200-108064000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr5:108063200-108064400	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr5:108063200-108064400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr5:108063200-108064400	Active TSS	Primary T helper naive cells fromperipheralblood	blood
46	chr5:108063200-108064400	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr5:108063200-108064400	Active TSS	Esophagus	oesophagus
48	chr5:108063200-108064600	Active TSS	iPS-15b Cell Line	embryonic stem cell
49	chr5:108063200-108064600	Active TSS	Primary T killer naive cells fromperipheralblood	blood
50	chr5:108063200-108064600	Active TSS	Primary T killer memory cells from peripheral blood	blood

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