Variant report

Variant	rs7644176
Chromosome Location	chr3:93784097-93784098
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:93770469..93772634-chr3:93784078..93786437,2	MCF-7	breast:
2	chr3:93739958..93742338-chr3:93782730..93785383,2	K562	blood:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11927165	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13094371	1.00[CHD][hapmap];0.87[ASN][1000 genomes]
rs13095871	0.87[ASN][1000 genomes]
rs28372461	1.00[CEU][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28479320	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60331129	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6765330	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6795524	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs6809958	0.83[EUR][1000 genomes]
rs72929719	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7615950	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8178587	0.83[EUR][1000 genomes]
rs9810986	0.84[ASW][hapmap];1.00[CEU][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9815634	0.89[EUR][1000 genomes]
rs9826711	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs9869941	0.81[ASN][1000 genomes]
rs9990106	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869241	chr3:93527675-94504491	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv998173	chr3:93575084-94427403	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv536644	chr3:93575084-94427403	Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1008711	chr3:93575284-94427264	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	nsv536646	chr3:93575284-94427264	Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
6	nsv491829	chr3:93575285-94427263	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
7	esv1795060	chr3:93602038-93848525	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	n/a
8	esv1791740	chr3:93602927-93849247	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	n/a
9	esv2755326	chr3:93605126-93882750	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	n/a
10	nsv1013107	chr3:93654100-94102212	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
11	nsv536648	chr3:93654100-94102212	Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
12	nsv1004176	chr3:93654100-94502551	Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
13	nsv967185	chr3:93771419-93794318	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	n/a
14	nsv877162	chr3:93779664-94278078	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr3:93782200-93784400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
2	chr3:93782400-93804400	Weak transcription	Spleen	Spleen
3	chr3:93782600-93786800	Enhancers	Stomach Mucosa	stomach
4	chr3:93782800-93784200	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr3:93782800-93784400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:93782800-93784600	Enhancers	Fetal Brain Male	brain
7	chr3:93782800-93785000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr3:93782800-93785200	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr3:93782800-93785200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
10	chr3:93782800-93785200	Enhancers	Primary T killer memory cells from peripheral blood	blood
11	chr3:93782800-93785600	Enhancers	Brain Cingulate Gyrus	brain
12	chr3:93782800-93785800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:93782800-93785800	Weak transcription	Fetal Kidney	kidney
14	chr3:93782800-93792400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr3:93782800-93795200	Weak transcription	HSMMtube	muscle
16	chr3:93782800-93795800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr3:93782800-93799200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr3:93782800-93799600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr3:93782800-93813400	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr3:93782800-93848200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr3:93782800-93849400	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr3:93783000-93784200	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr3:93783000-93784200	Weak transcription	Aorta	Aorta
24	chr3:93783000-93784200	Enhancers	Liver	Liver
25	chr3:93783000-93784200	Enhancers	Brain Hippocampus Middle	brain
26	chr3:93783000-93784200	Weak transcription	Right Atrium	heart
27	chr3:93783000-93784200	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr3:93783000-93784400	Enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr3:93783000-93784400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr3:93783000-93784600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr3:93783000-93785000	Enhancers	Primary T helper cells fromperipheralblood	blood
32	chr3:93783000-93785200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
33	chr3:93783000-93785400	Weak transcription	Fetal Lung	lung
34	chr3:93783000-93785400	Weak transcription	Fetal Muscle Leg	muscle
35	chr3:93783000-93785600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr3:93783000-93785600	Weak transcription	Placenta	Placenta
37	chr3:93783000-93785600	Weak transcription	Fetal Stomach	stomach
38	chr3:93783000-93785800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
39	chr3:93783000-93785800	Weak transcription	Fetal Muscle Trunk	muscle
40	chr3:93783000-93785800	Weak transcription	Left Ventricle	heart
41	chr3:93783000-93785800	Weak transcription	Thymus	Thymus
42	chr3:93783000-93786600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr3:93783000-93790400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr3:93783000-93790600	Weak transcription	Esophagus	oesophagus
45	chr3:93783000-93790600	Weak transcription	Gastric	stomach
46	chr3:93783000-93790600	Weak transcription	Lung	lung
47	chr3:93783000-93790600	Weak transcription	Pancreas	Pancrea
48	chr3:93783000-93795000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr3:93783000-93795000	Weak transcription	HUES64 Cell Line	embryonic stem cell
50	chr3:93783000-93795200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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