Variant report

Variant	rs59066195
Chromosome Location	chr15:56990486-56990487
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:56986912..56991518-chr15:56996141..56999393,4	K562	blood:
2	chr15:56990453..56992167-chr7:33100522..33103358,2	MCF-7	breast:
3	chr15:56989844..56991696-chr15:57023629..57025525,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000122643	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10518871	0.84[ASN][1000 genomes]
rs11852822	0.86[ASN][1000 genomes]
rs2128171	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3784553	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6493882	0.84[ASN][1000 genomes]
rs7164095	0.89[ASN][1000 genomes]
rs7165211	0.87[EUR][1000 genomes]
rs7171500	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7172110	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7181745	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[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	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs59066195	TCF12	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56916600-56990800	Weak transcription	Pancreas	Pancrea
2	chr15:56917800-56990600	Weak transcription	Rectal Smooth Muscle	rectum
3	chr15:56917800-56990600	Weak transcription	NHLF	lung
4	chr15:56919800-57016600	Weak transcription	Small Intestine	intestine
5	chr15:56924000-56990600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr15:56924000-56990800	Weak transcription	NHEK	skin
7	chr15:56928400-56996800	Weak transcription	Gastric	stomach
8	chr15:56937400-57000200	Weak transcription	Colonic Mucosa	Colon
9	chr15:56939200-56990800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr15:56945800-56990800	Weak transcription	Fetal Brain Male	brain
11	chr15:56946000-56990800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr15:56946200-56990800	Weak transcription	Right Ventricle	heart
13	chr15:56955800-56990600	Weak transcription	Esophagus	oesophagus
14	chr15:56958400-56990600	Weak transcription	Lung	lung
15	chr15:56958400-56990800	Weak transcription	Brain Germinal Matrix	brain
16	chr15:56958400-57019200	Weak transcription	Fetal Intestine Small	intestine
17	chr15:56958600-56990600	Weak transcription	Fetal Muscle Trunk	muscle
18	chr15:56959200-56990600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr15:56959200-56990600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr15:56959200-56990600	Weak transcription	Stomach Smooth Muscle	stomach
21	chr15:56959200-56992000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr15:56960800-56992000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr15:56961200-56990600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr15:56961200-56992200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr15:56965600-56990800	Weak transcription	K562	blood
26	chr15:56967000-56990800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr15:56967600-56990600	Weak transcription	Left Ventricle	heart
28	chr15:56968400-56990600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr15:56968400-56992000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr15:56968400-56992000	Weak transcription	HSMMtube	muscle
31	chr15:56969000-56990800	Weak transcription	HMEC	breast
32	chr15:56969400-56990800	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr15:56969800-56990600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr15:56969800-56990600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr15:56969800-56990600	Weak transcription	Brain Angular Gyrus	brain
36	chr15:56969800-56990800	Weak transcription	HepG2	liver
37	chr15:56970600-56990600	Weak transcription	Psoas Muscle	Psoas
38	chr15:56971000-56990600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr15:56971000-56990600	Weak transcription	Fetal Stomach	stomach
40	chr15:56971000-56990600	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr15:56971000-57023400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr15:56971800-56990600	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr15:56976400-56990600	Weak transcription	Brain Cingulate Gyrus	brain
44	chr15:56976400-56990800	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr15:56976400-56991000	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr15:56976400-56992400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr15:56976600-56990600	Weak transcription	Thymus	Thymus
48	chr15:56978000-56990600	Weak transcription	Brain Hippocampus Middle	brain
49	chr15:56978000-56992000	Weak transcription	Colon Smooth Muscle	Colon
50	chr15:56978200-56990600	Weak transcription	Primary T cells from cord blood	blood

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