Variant report

Variant	rs12261572
Chromosome Location	chr10:89523385-89523386
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:89418532..89421056-chr10:89521556..89523639,2	MCF-7	breast:
2	chr10:89522883..89524581-chr10:89525481..89528269,2	K562	blood:
3	chr10:89523125..89525014-chr10:89530627..89532236,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198682	Chromatin interaction
ENSG00000196566	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11202542	1.00[AFR][1000 genomes]
rs11202572	0.91[AFR][1000 genomes]
rs12240369	0.91[AFR][1000 genomes]
rs12241293	0.91[AFR][1000 genomes]
rs12256039	1.00[AFR][1000 genomes]
rs12261187	1.00[AFR][1000 genomes]
rs12267114	0.91[AFR][1000 genomes]
rs73352840	0.82[AFR][1000 genomes]
rs73352850	1.00[AFR][1000 genomes]
rs73352853	1.00[AFR][1000 genomes]
rs73352868	0.91[AFR][1000 genomes]
rs73352874	0.91[AFR][1000 genomes]
rs73352876	0.91[AFR][1000 genomes]
rs73352886	0.91[AFR][1000 genomes]
rs7897414	1.00[AFR][1000 genomes]
rs7902457	0.91[AFR][1000 genomes]
rs7921963	0.91[AFR][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	nsv518233	chr10:89512839-89584002	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1041462	chr10:89518729-89584284	Strong transcription Flanking Active TSS Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89463000-89541400	Weak transcription	Rectal Smooth Muscle	rectum
2	chr10:89473000-89577200	Weak transcription	Gastric	stomach
3	chr10:89476200-89542400	Weak transcription	Pancreas	Pancrea
4	chr10:89495000-89541400	Weak transcription	Right Ventricle	heart
5	chr10:89495000-89576400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr10:89495200-89530600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr10:89495200-89542600	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr10:89495200-89544600	Weak transcription	Brain Substantia Nigra	brain
9	chr10:89495200-89559200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr10:89495200-89577400	Weak transcription	Spleen	Spleen
11	chr10:89495400-89525600	Weak transcription	Brain Hippocampus Middle	brain
12	chr10:89498200-89541400	Weak transcription	Aorta	Aorta
13	chr10:89498800-89536200	Weak transcription	Small Intestine	intestine
14	chr10:89503400-89528400	Weak transcription	Fetal Muscle Trunk	muscle
15	chr10:89504200-89551800	Weak transcription	Psoas Muscle	Psoas
16	chr10:89507000-89525600	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr10:89507000-89557600	Weak transcription	Lung	lung
18	chr10:89509000-89527000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr10:89510200-89553800	Weak transcription	Esophagus	oesophagus
20	chr10:89510400-89525800	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr10:89511000-89576800	Weak transcription	Colonic Mucosa	Colon
22	chr10:89511200-89526800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr10:89511600-89525600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr10:89512600-89525600	Weak transcription	Fetal Brain Female	brain
25	chr10:89512800-89560400	Weak transcription	Fetal Brain Male	brain
26	chr10:89513400-89577000	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr10:89514600-89524800	Weak transcription	Fetal Lung	lung
28	chr10:89514600-89525600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr10:89514600-89526000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr10:89514600-89528600	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr10:89514600-89534600	Weak transcription	Ovary	ovary
32	chr10:89514600-89539800	Weak transcription	Fetal Kidney	kidney
33	chr10:89516000-89524000	Weak transcription	Fetal Muscle Leg	muscle
34	chr10:89516000-89526800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr10:89516000-89541200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr10:89516200-89524000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr10:89516200-89535400	Weak transcription	Brain Anterior Caudate	brain
38	chr10:89516400-89524200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr10:89516400-89525400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr10:89516400-89525600	Weak transcription	Colon Smooth Muscle	Colon
41	chr10:89516400-89528400	Weak transcription	Adipose Nuclei	Adipose
42	chr10:89516400-89541400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr10:89516400-89557800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr10:89516600-89525400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr10:89516600-89525400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr10:89517000-89525600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
47	chr10:89517800-89525400	Weak transcription	Fetal Intestine Large	intestine
48	chr10:89518200-89525400	Weak transcription	Brain Angular Gyrus	brain
49	chr10:89518200-89556600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr10:89518400-89559000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

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