Variant report

Variant	rs12906027
Chromosome Location	chr15:83707703-83707704
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:83668024..83670019-chr15:83707664..83709687,2	K562	blood:
2	chr15:83679479..83681361-chr15:83707493..83709575,2	MCF-7	breast:
3	chr15:83706535..83711494-chr15:83875161..83878411,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166503	Chromatin interaction
ENSG00000169609	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10400812	0.95[ASN][1000 genomes]
rs11858074	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12591237	0.83[ASN][1000 genomes]
rs12592391	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12593316	0.86[ASN][1000 genomes]
rs12899522	0.88[ASN][1000 genomes]
rs12900411	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12901811	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12902721	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12903066	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12904695	0.95[ASN][1000 genomes]
rs12906626	0.95[ASN][1000 genomes]
rs12907032	0.95[ASN][1000 genomes]
rs12911706	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12911891	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12913130	0.95[ASN][1000 genomes]
rs12917594	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13329195	0.95[ASN][1000 genomes]
rs13329269	0.88[ASN][1000 genomes]
rs17158127	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17507300	0.97[ASN][1000 genomes]
rs2084839	0.83[ASN][1000 genomes]
rs2381030	0.94[ASN][1000 genomes]
rs28485801	0.95[ASN][1000 genomes]
rs28580677	0.95[ASN][1000 genomes]
rs3087804	0.95[ASN][1000 genomes]
rs34426565	0.81[EUR][1000 genomes]
rs34869943	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35207081	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35627116	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs36038412	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4079029	0.95[ASN][1000 genomes]
rs58329615	0.81[ASN][1000 genomes]
rs6603044	0.95[ASN][1000 genomes]
rs6603046	0.94[ASN][1000 genomes]
rs66606849	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67482297	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67822554	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7163516	0.89[ASN][1000 genomes]
rs7166645	0.94[ASN][1000 genomes]
rs7170547	0.94[ASN][1000 genomes]
rs7177599	0.95[ASN][1000 genomes]
rs7181169	0.95[ASN][1000 genomes]
rs750214	0.94[ASN][1000 genomes]
rs7757	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8031896	0.97[ASN][1000 genomes]
rs8040457	0.94[ASN][1000 genomes]
rs8040998	0.95[ASN][1000 genomes]
rs9646239	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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	nsv1040336	chr15:83578947-83768335	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv482308	chr15:83584918-83747362	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83681200-83710200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:83681600-83732000	Weak transcription	Stomach Mucosa	stomach
3	chr15:83682000-83708400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr15:83682200-83708600	Weak transcription	Fetal Heart	heart
5	chr15:83683000-83723000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr15:83683400-83726600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr15:83687000-83708200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr15:83687600-83709600	Weak transcription	Brain Angular Gyrus	brain
9	chr15:83688800-83708800	Weak transcription	Fetal Brain Male	brain
10	chr15:83689400-83708600	Weak transcription	NHEK	skin
11	chr15:83690000-83708200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr15:83690000-83708800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr15:83690400-83708000	Weak transcription	Brain Germinal Matrix	brain
14	chr15:83695400-83714600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr15:83695800-83715400	Weak transcription	HSMMtube	muscle
16	chr15:83696400-83708200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr15:83697800-83721000	Strong transcription	Fetal Intestine Large	intestine
18	chr15:83698400-83708600	Weak transcription	Brain Anterior Caudate	brain
19	chr15:83698600-83708200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr15:83698600-83709600	Weak transcription	Colon Smooth Muscle	Colon
21	chr15:83698800-83708200	Weak transcription	HUVEC	blood vessel
22	chr15:83698800-83708600	Weak transcription	HMEC	breast
23	chr15:83698800-83712000	Weak transcription	Colonic Mucosa	Colon
24	chr15:83699000-83708200	Weak transcription	Left Ventricle	heart
25	chr15:83699000-83708200	Weak transcription	Ovary	ovary
26	chr15:83699000-83708200	Weak transcription	Right Ventricle	heart
27	chr15:83699000-83708200	Weak transcription	Spleen	Spleen
28	chr15:83699000-83708200	Weak transcription	NHLF	lung
29	chr15:83699000-83708400	Weak transcription	Pancreas	Pancrea
30	chr15:83699000-83708600	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr15:83699000-83708600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr15:83699000-83708600	Weak transcription	Placenta	Placenta
33	chr15:83699000-83708800	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr15:83699000-83709000	Weak transcription	Small Intestine	intestine
35	chr15:83699000-83710000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr15:83699000-83712000	Weak transcription	Gastric	stomach
37	chr15:83699000-83715800	Weak transcription	Brain Substantia Nigra	brain
38	chr15:83699000-83716800	Weak transcription	Aorta	Aorta
39	chr15:83699000-83725800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr15:83699200-83708000	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr15:83699200-83708000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr15:83699200-83708000	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr15:83699200-83708600	Weak transcription	Osteobl	bone
44	chr15:83699200-83708800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr15:83699400-83708200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr15:83699400-83708800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr15:83699400-83708800	Weak transcription	NH-A	brain
48	chr15:83699600-83708600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr15:83699800-83709000	Weak transcription	Hela-S3	cervix
50	chr15:83700000-83708000	Weak transcription	Adipose Nuclei	Adipose

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