Variant report

Variant	rs6481497
Chromosome Location	chr10:28287011-28287012
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MYC	chr10:28287000-28287211	NB4	blood:	n/a	n/a
2	ZNF263	chr10:28286875-28288164	HEK293-T-REx	kidney:	n/a	chr10:28287544-28287553
3	TCF7L2	chr10:28286692-28287050	HEK293	kidney:	n/a	chr10:28286809-28286816 chr10:28286809-28286818
4	SIN3A	chr10:28286975-28288232	H1-hESC	embryonic stem cell:	n/a	chr10:28287794-28287805
5	POLR2A	chr10:28286973-28288141	NB4	blood:	n/a	n/a
6	FOXA1	chr10:28286641-28287027	HepG2	liver:	n/a	chr10:28286860-28286875 chr10:28286878-28286893
7	KAP1	chr10:28286960-28288168	HEK293	kidney:	n/a	n/a
8	FOXA2	chr10:28286749-28287016	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ENSG00000233472	TF binding region
ARMC4	TF binding region

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10826379	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11006790	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11006798	0.82[EUR][1000 genomes]
rs11595811	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12218330	0.94[ASN][1000 genomes]
rs4385792	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4747609	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4747610	0.86[EUR][1000 genomes]
rs4747611	0.82[EUR][1000 genomes]
rs4749292	0.86[EUR][1000 genomes]
rs4749293	0.86[EUR][1000 genomes]
rs7076786	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7095042	0.82[EUR][1000 genomes]
rs7917840	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9416763	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv894987	chr10:28165502-28326775	ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv831815	chr10:28235661-28407533	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv1052182	chr10:28259142-28361830	Strong transcription Weak transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28239800-28287200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:28286200-28288000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr10:28286600-28287600	Active TSS	Primary B cells from cord blood	blood
4	chr10:28286600-28287600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr10:28286600-28288000	Active TSS	iPS-20b Cell Line	embryonic stem cell
6	chr10:28286600-28288200	Flanking Active TSS	Liver	Liver
7	chr10:28286600-28288400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr10:28286600-28288400	Active TSS	Stomach Smooth Muscle	stomach
9	chr10:28286600-28288600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
10	chr10:28286600-28288600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
11	chr10:28286800-28287200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
12	chr10:28286800-28287200	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
13	chr10:28286800-28287200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr10:28286800-28287400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr10:28286800-28287400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr10:28286800-28287400	Flanking Active TSS	HUVEC	blood vessel
17	chr10:28286800-28287400	Flanking Bivalent TSS/Enh	Osteobl	bone
18	chr10:28286800-28287800	Active TSS	ES-I3 Cell Line	embryonic stem cell
19	chr10:28286800-28287800	Flanking Bivalent TSS/Enh	Dnd41	blood
20	chr10:28286800-28288000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr10:28286800-28288000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr10:28286800-28288000	Active TSS	Brain Substantia Nigra	brain
23	chr10:28286800-28288000	Active TSS	Colon Smooth Muscle	Colon
24	chr10:28286800-28288000	Active TSS	Fetal Stomach	stomach
25	chr10:28286800-28288200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
26	chr10:28286800-28288200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr10:28286800-28288200	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr10:28286800-28288200	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr10:28286800-28288200	Active TSS	Primary T cells from cord blood	blood
30	chr10:28286800-28288200	Active TSS	Brain Angular Gyrus	brain
31	chr10:28286800-28288200	Active TSS	Fetal Kidney	kidney
32	chr10:28286800-28288200	Active TSS	Pancreatic Islets	Pancreatic Islet
33	chr10:28286800-28288200	Active TSS	Ovary	ovary
34	chr10:28286800-28288200	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
35	chr10:28286800-28288200	Active TSS	NH-A	brain
36	chr10:28286800-28288400	Active TSS	H9 Cell Line	embryonic stem cell
37	chr10:28286800-28288400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr10:28286800-28288400	Active TSS	Breast Myoepithelial Primary Cells	Breast
39	chr10:28286800-28288400	Active TSS	Primary hematopoietic stem cells	blood
40	chr10:28286800-28288400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr10:28286800-28288400	Active TSS	Brain Anterior Caudate	brain
42	chr10:28286800-28288400	Active TSS	Duodenum Smooth Muscle	Duodenum
43	chr10:28286800-28288400	Active TSS	Fetal Brain Female	brain
44	chr10:28286800-28288400	Active TSS	Rectal Smooth Muscle	rectum
45	chr10:28287000-28287200	Active TSS	H1 Cell Line	embryonic stem cell
46	chr10:28287000-28287200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
47	chr10:28287000-28287200	Bivalent Enhancer	Primary B cells from peripheral blood	blood
48	chr10:28287000-28287200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
49	chr10:28287000-28287200	Flanking Bivalent TSS/Enh	Primary T helper 17 cells PMA-I stimulated	--
50	chr10:28287000-28287200	Flanking Bivalent TSS/Enh	Muscle Satellite Cultured Cells	--

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