Variant report

Variant	rs17102839
Chromosome Location	chr14:66131908-66131909
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	chr14:66125185..66127124-chr14:66130505..66132106,2	MCF-7	breast:

Extended variants
information (count: 131 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:123)

rs_ID	r²[population]
rs10130526	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10131727	0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10143920	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10149311	0.89[ASN][1000 genomes]
rs10483777	0.91[ASN][1000 genomes]
rs11847101	0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11849249	0.87[ASN][1000 genomes]
rs11849792	0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12323434	0.89[ASN][1000 genomes]
rs12431562	1.00[CHB][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs12431772	1.00[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs12432032	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12432422	0.87[ASN][1000 genomes]
rs12432426	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs12433273	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12433688	0.89[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs12434375	0.86[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12434513	0.91[ASN][1000 genomes]
rs12434626	0.95[ASN][1000 genomes]
rs12435769	0.89[ASN][1000 genomes]
rs12435809	1.00[ASN][1000 genomes]
rs12435971	0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12436349	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12436381	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12436402	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12436434	0.91[ASN][1000 genomes]
rs12436482	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12436677	1.00[ASN][1000 genomes]
rs12436771	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12437088	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs17102688	0.89[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs17102708	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.91[ASN][1000 genomes]
rs17102854	0.89[ASN][1000 genomes]
rs17102894	0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs17102898	0.88[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs17102910	0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs17246385	1.00[ASN][1000 genomes]
rs17246441	0.89[ASN][1000 genomes]
rs17246504	0.84[ASN][1000 genomes]
rs17246532	0.86[ASN][1000 genomes]
rs17826892	0.89[ASN][1000 genomes]
rs17826946	0.89[ASN][1000 genomes]
rs17826952	0.89[ASN][1000 genomes]
rs1952605	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2073295	0.89[ASN][1000 genomes]
rs2268965	0.88[CHB][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs2295360	0.84[ASN][1000 genomes]
rs2300863	0.96[ASN][1000 genomes]
rs2300866	0.96[ASN][1000 genomes]
rs2300870	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs28496380	0.89[ASN][1000 genomes]
rs2898701	0.87[ASN][1000 genomes]
rs55674739	0.94[AFR][1000 genomes]
rs55698845	0.94[AFR][1000 genomes]
rs55723633	0.84[AFR][1000 genomes]
rs55954698	0.94[AFR][1000 genomes]
rs56258162	0.94[AFR][1000 genomes]
rs56401246	0.83[AFR][1000 genomes]
rs56821971	0.89[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs57228058	0.94[AFR][1000 genomes]
rs57283810	0.84[AFR][1000 genomes]
rs58087042	0.89[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs58160832	0.89[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs59036531	0.87[ASN][1000 genomes]
rs60009307	0.94[AFR][1000 genomes]
rs60393585	0.94[AFR][1000 genomes]
rs60470427	0.94[AFR][1000 genomes]
rs61016861	0.94[AFR][1000 genomes]
rs61417186	0.89[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs61987778	0.87[ASN][1000 genomes]
rs61987810	0.82[ASN][1000 genomes]
rs74056768	0.94[AFR][1000 genomes]
rs74056775	0.89[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs74056782	0.89[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs74056784	0.94[AFR][1000 genomes]
rs74056787	0.89[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs74056794	0.89[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs74056796	0.94[AFR][1000 genomes]
rs74056798	0.94[AFR][1000 genomes]
rs74056800	0.91[ASN][1000 genomes]
rs74056807	0.89[AFR][1000 genomes]
rs74056811	0.94[AFR][1000 genomes]
rs74056813	0.94[AFR][1000 genomes]
rs74056815	0.94[AFR][1000 genomes]
rs74056816	0.94[AFR][1000 genomes]
rs74056820	0.82[ASN][1000 genomes]
rs74056826	0.89[AFR][1000 genomes]
rs74056829	0.94[AFR][1000 genomes]
rs74056844	1.00[AMR][1000 genomes]
rs74056845	1.00[AMR][1000 genomes]
rs74056851	1.00[AMR][1000 genomes]
rs74058503	0.84[AFR][1000 genomes]
rs74058505	0.91[ASN][1000 genomes]
rs74058507	0.94[AFR][1000 genomes]
rs74058513	0.84[AFR][1000 genomes]
rs74058518	0.94[AFR][1000 genomes]
rs74058519	0.84[AFR][1000 genomes]
rs74058523	0.94[AFR][1000 genomes]
rs74058524	0.94[AFR][1000 genomes]
rs74058525	0.89[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs74058528	0.94[AFR][1000 genomes]
rs74058529	0.84[AFR][1000 genomes]
rs74058536	0.83[AFR][1000 genomes]
rs74058539	0.94[AFR][1000 genomes]
rs74058541	1.00[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs74058545	0.94[AFR][1000 genomes]
rs74058546	0.94[AFR][1000 genomes]
rs74058547	0.94[AFR][1000 genomes]
rs74058548	0.94[AFR][1000 genomes]
rs74058549	0.94[AFR][1000 genomes]
rs74058550	0.94[AFR][1000 genomes]
rs74058551	0.94[AFR][1000 genomes]
rs74058553	0.94[AFR][1000 genomes]
rs74058554	0.94[AFR][1000 genomes]
rs74058556	0.94[AFR][1000 genomes]
rs74058557	0.94[AFR][1000 genomes]
rs74058560	0.89[ASN][1000 genomes]
rs74058562	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs74058563	0.94[AFR][1000 genomes]
rs74058564	0.94[AFR][1000 genomes]
rs8004564	0.87[ASN][1000 genomes]
rs956582	0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs997794	0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036403	chr14:65724229-66208114	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv1043943	chr14:65782466-66698411	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
3	nsv542120	chr14:65782466-66698411	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
4	nsv1039168	chr14:65811750-66308343	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
5	esv3366524	chr14:65924360-66423862	Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
6	nsv1045000	chr14:66010886-66372518	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv1042671	chr14:66010886-66399888	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv902026	chr14:66061020-66171541	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:66081400-66142200	Weak transcription	Thymus	Thymus
2	chr14:66090800-66145000	Weak transcription	Small Intestine	intestine
3	chr14:66092800-66141000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr14:66099000-66135200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr14:66099200-66135800	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr14:66099200-66144000	Weak transcription	Duodenum Mucosa	Duodenum
7	chr14:66100600-66160000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr14:66105000-66143400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr14:66105000-66149600	Weak transcription	Fetal Thymus	thymus
10	chr14:66105000-66157400	Weak transcription	Primary hematopoietic stem cells	blood
11	chr14:66105200-66135600	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr14:66105200-66136000	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr14:66113400-66141400	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr14:66114000-66135600	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr14:66116200-66135000	Weak transcription	Dnd41	blood
16	chr14:66120200-66135000	Weak transcription	Primary B cells from cord blood	blood
17	chr14:66123200-66133800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr14:66125600-66135800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr14:66125600-66138200	Weak transcription	NHLF	lung
20	chr14:66125600-66146600	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr14:66125600-66157400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr14:66126400-66146800	Weak transcription	Brain Cingulate Gyrus	brain
23	chr14:66126800-66135400	Weak transcription	GM12878-XiMat	blood
24	chr14:66126800-66153400	Weak transcription	Aorta	Aorta
25	chr14:66128200-66138600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr14:66129400-66143200	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr14:66129600-66132200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr14:66130200-66132200	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr14:66130400-66132400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr14:66130400-66133200	Enhancers	HUES48 Cell Line	embryonic stem cell
31	chr14:66130400-66133200	Enhancers	HUES64 Cell Line	embryonic stem cell
32	chr14:66130400-66141800	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr14:66130400-66146600	Weak transcription	Brain Angular Gyrus	brain
34	chr14:66130800-66136000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr14:66130800-66141600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr14:66131000-66132600	Enhancers	H1 Cell Line	embryonic stem cell
37	chr14:66131000-66143400	Weak transcription	Rectal Smooth Muscle	rectum
38	chr14:66131200-66132800	Enhancers	Primary B cells from peripheral blood	blood
39	chr14:66131400-66141200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr14:66131600-66132000	Enhancers	HUES6 Cell Line	embryonic stem cell
41	chr14:66131600-66133200	Enhancers	iPS-18 Cell Line	embryonic stem cell
42	chr14:66131600-66133200	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr14:66131600-66135600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr14:66131800-66132200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr14:66131800-66137000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr14:66131800-66138400	Weak transcription	Cortex derived primary cultured neurospheres	brain

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