Variant report

Variant	rs73608223
Chromosome Location	chr10:25304677-25304678
allele	A/G
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	chr10:25304507-25306456	A549	lung:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
2	MAZ	chr10:25304494-25306536	IMR90	lung:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
3	ELK1	chr10:25304608-25305286	GM12878	blood:	n/a	n/a
4	REST	chr10:25304520-25306779	H1-neurons	neurons:	n/a	chr10:25305961-25305974 chr10:25305390-25305403 chr10:25305383-25305396 chr10:25305926-25305939
5	POLR2A	chr10:25304549-25307291	MCF10A-Er-Src	breast:	n/a	n/a
6	MXI1	chr10:25304642-25306615	IMR90	lung:	n/a	chr10:25305091-25305106 chr10:25305089-25305104
7	MAX	chr10:25304651-25306540	ECC-1	luminal epithelium:	n/a	chr10:25305892-25305901 chr10:25305505-25305514 chr10:25305500-25305519 chr10:25305507-25305523 chr10:25305504-25305515 chr10:25305919-25305929
8	POLR2A	chr10:25304575-25307241	MCF10A-Er-Src	breast:	n/a	n/a
9	MXI1	chr10:25303456-25306983	SK-N-SH	brain:	n/a	chr10:25305091-25305106 chr10:25305089-25305104

No.	Distal block	Cell Line	Cell type
1	chr10:24926297..24929907-chr10:25304441..25307349,3	MCF-7	breast:
2	chr10:25010539..25015061-chr10:25304353..25309032,5	K562	blood:
3	chr10:25009784..25012218-chr10:25304353..25306747,3	K562	blood:
4	chr10:25008982..25015736-chr10:25303520..25307645,9	MCF-7	breast:
5	chr10:25011203..25013801-chr10:25304621..25307891,5	MCF-7	breast:

Variant related genes	Relation type
THNSL1	TF binding region
ENSG00000107863	Chromatin interaction
ENSG00000199535	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs1124490	1.00[EUR][1000 genomes]
rs12241288	1.00[EUR][1000 genomes]
rs12248877	0.86[EUR][1000 genomes]
rs12261100	0.93[EUR][1000 genomes]
rs1388926	0.93[EUR][1000 genomes]
rs1409305	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1552772	1.00[EUR][1000 genomes]
rs16925193	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925198	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3808907	0.87[EUR][1000 genomes]
rs41279882	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279890	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279894	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41304607	0.93[EUR][1000 genomes]
rs41307498	0.93[EUR][1000 genomes]
rs55788231	0.93[EUR][1000 genomes]
rs57639701	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57642444	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57695610	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58164169	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58320082	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59189661	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59876862	0.93[EUR][1000 genomes]
rs60880723	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61278248	1.00[EUR][1000 genomes]
rs61585865	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6482464	1.00[EUR][1000 genomes]
rs7072278	0.80[EUR][1000 genomes]
rs7073171	0.93[EUR][1000 genomes]
rs7075327	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7080371	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7083691	0.93[EUR][1000 genomes]
rs7099168	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73606594	0.93[EUR][1000 genomes]
rs73606599	1.00[EUR][1000 genomes]
rs73606600	1.00[EUR][1000 genomes]
rs73608203	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608204	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608206	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608208	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608210	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608211	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608212	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608213	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608214	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608216	0.93[EUR][1000 genomes]
rs73608217	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608218	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608219	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608224	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608225	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608226	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73608229	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608233	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608234	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608235	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608236	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608237	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608238	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608239	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608240	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608241	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7905478	1.00[EUR][1000 genomes]
rs7920527	0.93[EUR][1000 genomes]
rs9663998	0.90[AMR][1000 genomes];1.00[EUR][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	esv3418576	chr10:25295995-25311122	Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25300200-25304800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr10:25302400-25304800	Weak transcription	Esophagus	oesophagus
3	chr10:25303000-25306400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr10:25303200-25306600	Active TSS	Brain Anterior Caudate	brain
5	chr10:25303400-25305600	Active TSS	Cortex derived primary cultured neurospheres	brain
6	chr10:25303800-25306200	Active TSS	Brain Germinal Matrix	brain
7	chr10:25303800-25306400	Active TSS	Brain Hippocampus Middle	brain
8	chr10:25303800-25306600	Active TSS	Brain Cingulate Gyrus	brain
9	chr10:25303800-25306600	Active TSS	Brain Inferior Temporal Lobe	brain
10	chr10:25304000-25307000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
11	chr10:25304200-25306400	Active TSS	Fetal Brain Male	brain
12	chr10:25304200-25306600	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr10:25304400-25304800	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr10:25304400-25304800	Enhancers	Primary T cells fromperipheralblood	blood
15	chr10:25304400-25304800	Flanking Active TSS	Fetal Brain Female	brain
16	chr10:25304400-25304800	Active TSS	GM12878-XiMat	blood
17	chr10:25304400-25304800	Enhancers	Osteobl	bone
18	chr10:25304400-25305000	Flanking Active TSS	HMEC	breast
19	chr10:25304400-25305200	Flanking Active TSS	Dnd41	blood
20	chr10:25304400-25306200	Active TSS	Brain Substantia Nigra	brain
21	chr10:25304400-25306200	Active TSS	K562	blood
22	chr10:25304400-25306600	Active TSS	Pancreatic Islets	Pancreatic Islet
23	chr10:25304600-25304800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr10:25304600-25304800	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
25	chr10:25304600-25304800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr10:25304600-25304800	Enhancers	Primary B cells from peripheral blood	blood
27	chr10:25304600-25304800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr10:25304600-25304800	Enhancers	Primary T helper naive cells from peripheral blood	blood
29	chr10:25304600-25304800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
30	chr10:25304600-25304800	Enhancers	Primary T helper cells PMA-I stimulated	--
31	chr10:25304600-25304800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
32	chr10:25304600-25304800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
33	chr10:25304600-25304800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr10:25304600-25304800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
35	chr10:25304600-25304800	Enhancers	Adipose Nuclei	Adipose
36	chr10:25304600-25304800	Active TSS	Brain Angular Gyrus	brain
37	chr10:25304600-25304800	Enhancers	Colonic Mucosa	Colon
38	chr10:25304600-25304800	Enhancers	Placenta	Placenta
39	chr10:25304600-25304800	Enhancers	Fetal Thymus	thymus
40	chr10:25304600-25304800	Enhancers	Rectal Mucosa Donor 31	rectum
41	chr10:25304600-25304800	Enhancers	Skeletal Muscle Male	skeletal muscle
42	chr10:25304600-25304800	Active TSS	Skeletal Muscle Female	skeletal muscle
43	chr10:25304600-25304800	Active TSS	HepG2	liver
44	chr10:25304600-25305000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr10:25304600-25305000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr10:25304600-25305000	Enhancers	Primary neutrophils fromperipheralblood	blood
47	chr10:25304600-25305000	Flanking Active TSS	Primary T cells from cord blood	blood
48	chr10:25304600-25305000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
49	chr10:25304600-25305000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
50	chr10:25304600-25305000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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