Variant report

Variant	rs12906092
Chromosome Location	chr15:74609083-74609084
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:74607938..74610112-chr15:74637389..74639139,2	K562	blood:
2	chr15:74606974..74610112-chr15:74636759..74639139,3	K562	blood:
3	chr15:74607660..74609558-chr15:74611685..74613599,2	MCF-7	breast:
4	chr15:74607624..74610095-chr15:74613523..74615057,2	MCF-7	breast:
5	chr15:74284861..74287679-chr15:74606121..74609099,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067221	Chromatin interaction
ENSG00000140464	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11631552	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11632698	0.84[CEU][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11634685	0.84[CEU][hapmap];0.83[JPT][hapmap];0.87[YRI][hapmap];0.85[EUR][1000 genomes]
rs11635047	0.81[CEU][hapmap];0.83[EUR][1000 genomes]
rs11635550	0.81[ASN][1000 genomes]
rs11638442	0.85[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11856695	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12905100	0.89[CEU][hapmap];0.88[CHB][hapmap];0.93[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12913522	0.81[EUR][1000 genomes]
rs12917295	0.88[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12917557	0.82[YRI][hapmap]
rs1484210	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1564783	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs1809500	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2279378	0.84[CEU][hapmap];0.94[CHB][hapmap];0.87[JPT][hapmap];0.87[YRI][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2899825	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2930291	0.92[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34578565	0.81[EUR][1000 genomes]
rs351184	0.84[CEU][hapmap];0.83[JPT][hapmap];0.84[EUR][1000 genomes]
rs4887131	0.82[CEU][hapmap];0.84[JPT][hapmap];0.87[YRI][hapmap];0.85[EUR][1000 genomes]
rs4887132	0.85[EUR][1000 genomes]
rs4887134	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4887135	0.85[CEU][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56339065	0.80[EUR][1000 genomes]
rs900799	0.81[EUR][1000 genomes]
rs900800	0.82[EUR][1000 genomes]
rs900801	0.96[CEU][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833054	chr15:74457643-74625283	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv428641	chr15:74555113-74724630	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
3	nsv482615	chr15:74593625-74757962	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74596600-74609800	Weak transcription	A549	lung
2	chr15:74603000-74610800	Enhancers	Fetal Brain Male	brain
3	chr15:74604200-74613400	Enhancers	Placenta	Placenta
4	chr15:74604400-74613200	Enhancers	Fetal Thymus	thymus
5	chr15:74604800-74623400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr15:74605200-74613400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr15:74605400-74611200	Enhancers	Fetal Muscle Trunk	muscle
8	chr15:74605600-74610200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr15:74606000-74609400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr15:74606200-74612600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr15:74606200-74613400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr15:74606400-74613400	Enhancers	Fetal Muscle Leg	muscle
13	chr15:74606600-74611200	Enhancers	Brain Germinal Matrix	brain
14	chr15:74606600-74613400	Enhancers	Fetal Brain Female	brain
15	chr15:74607000-74611400	Enhancers	NH-A	brain
16	chr15:74607000-74613000	Enhancers	Primary hematopoietic stem cells	blood
17	chr15:74607200-74609200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr15:74607200-74609800	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr15:74607200-74610000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr15:74607200-74610000	Enhancers	NHDF-Ad	bronchial
21	chr15:74607200-74611600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr15:74607200-74611800	Enhancers	Left Ventricle	heart
23	chr15:74607200-74612000	Enhancers	Right Ventricle	heart
24	chr15:74607200-74612600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr15:74607200-74613000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr15:74607200-74613200	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr15:74607200-74613400	Enhancers	Cortex derived primary cultured neurospheres	brain
28	chr15:74607400-74609200	Enhancers	Fetal Intestine Small	intestine
29	chr15:74607400-74609800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr15:74607400-74609800	Enhancers	Primary T cells fromperipheralblood	blood
31	chr15:74607400-74613200	Enhancers	Adipose Nuclei	Adipose
32	chr15:74607600-74609800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr15:74607600-74609800	Weak transcription	Aorta	Aorta
34	chr15:74607600-74610600	Enhancers	Duodenum Smooth Muscle	Duodenum
35	chr15:74607600-74611600	Enhancers	HSMMtube	muscle
36	chr15:74607600-74613400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr15:74607800-74609600	Weak transcription	Osteobl	bone
38	chr15:74607800-74610400	Weak transcription	Small Intestine	intestine
39	chr15:74607800-74612000	Enhancers	NHLF	lung
40	chr15:74607800-74613000	Enhancers	Fetal Stomach	stomach
41	chr15:74608000-74609200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr15:74608000-74609200	Weak transcription	Colon Smooth Muscle	Colon
43	chr15:74608000-74609600	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr15:74608000-74609800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr15:74608000-74612600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr15:74608000-74613000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr15:74608200-74609200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr15:74608200-74609600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr15:74608200-74609600	Weak transcription	Stomach Mucosa	stomach
50	chr15:74608200-74609800	Weak transcription	HUES48 Cell Line	embryonic stem cell

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