Variant report

Variant	rs12906007
Chromosome Location	chr15:72985891-72985892
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:72985081..72986782-chr15:72990606..72992161,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11072380	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11072383	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11072389	0.89[ASN][1000 genomes]
rs11856110	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12437473	0.89[ASN][1000 genomes]
rs12439200	0.93[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs12439473	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12591690	0.91[ASN][1000 genomes]
rs12591728	0.86[CHB][hapmap];0.87[ASN][1000 genomes]
rs12594320	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12898814	0.85[CHB][hapmap]
rs12902361	0.91[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs12916236	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1346165	0.84[CHB][hapmap]
rs16957257	0.91[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs16957297	0.85[CHB][hapmap]
rs2304598	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28562097	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28648660	0.89[ASN][1000 genomes]
rs28737436	0.89[ASN][1000 genomes]
rs28801790	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28827493	0.89[ASN][1000 genomes]
rs34660767	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4777541	0.93[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs7162166	0.93[CHB][hapmap];0.88[ASN][1000 genomes]
rs7170394	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7172397	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7175918	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7182854	0.93[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs8023358	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8024644	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8026559	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs8031691	0.93[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];0.89[ASN][1000 genomes]
rs8036269	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758386	chr15:72819785-73120560	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	esv2760039	chr15:72819785-73120560	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv428307	chr15:72819785-73120560	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
4	esv3430383	chr15:72821093-73035167	Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72979200-73023600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:72979200-73023600	Weak transcription	Lung	lung
3	chr15:72979400-72986200	Weak transcription	Fetal Heart	heart
4	chr15:72979400-73002000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr15:72979400-73002000	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr15:72979400-73004400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr15:72979400-73006000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr15:72979400-73027200	Weak transcription	Aorta	Aorta
9	chr15:72979600-72986800	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr15:72979600-72988000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr15:72979600-72998800	Weak transcription	NH-A	brain
12	chr15:72979600-73002200	Weak transcription	Ovary	ovary
13	chr15:72979600-73004000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr15:72979600-73004200	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr15:72979600-73004600	Weak transcription	Primary B cells from cord blood	blood
16	chr15:72979600-73004600	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr15:72979600-73023200	Weak transcription	Fetal Kidney	kidney
18	chr15:72979600-73026800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr15:72979800-72989600	Weak transcription	Fetal Brain Female	brain
20	chr15:72979800-72998600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr15:72979800-73002000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr15:72979800-73004000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr15:72979800-73004400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr15:72979800-73007200	Weak transcription	Left Ventricle	heart
25	chr15:72979800-73027400	Weak transcription	Hela-S3	cervix
26	chr15:72980000-73002200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr15:72980000-73002200	Weak transcription	Fetal Stomach	stomach
28	chr15:72980000-73004000	Weak transcription	Fetal Muscle Leg	muscle
29	chr15:72980200-72988800	Weak transcription	A549	lung
30	chr15:72980200-72996200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr15:72980200-72998600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr15:72980200-73004200	Weak transcription	Liver	Liver
33	chr15:72980200-73008000	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr15:72981000-73018600	Weak transcription	Pancreas	Pancrea
35	chr15:72985000-73003800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr15:72985200-73002000	Weak transcription	Fetal Lung	lung
37	chr15:72985200-73021000	Weak transcription	Fetal Intestine Small	intestine

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