Variant report

Variant	rs10139892
Chromosome Location	chr14:66214534-66214535
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:65879004..65881155-chr14:66213120..66215142,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000033170	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10083327	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10083356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10129221	1.00[AMR][1000 genomes]
rs10129828	1.00[AMR][1000 genomes]
rs10131616	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10132138	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10132575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10134109	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10135224	0.89[AFR][1000 genomes]
rs10138881	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10139190	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10140494	1.00[AMR][1000 genomes]
rs10141632	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10143944	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10144478	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10144701	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10145479	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10146253	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10146510	1.00[AMR][1000 genomes]
rs10147262	1.00[AMR][1000 genomes]
rs10162357	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10162579	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10220481	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17102765	1.00[AMR][1000 genomes]
rs17102767	1.00[AMR][1000 genomes]
rs17102769	1.00[AMR][1000 genomes]
rs28370375	1.00[AMR][1000 genomes]
rs28375638	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28399233	1.00[AMR][1000 genomes]
rs28415772	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28452937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28571055	1.00[AMR][1000 genomes]
rs28612256	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28682570	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28716649	1.00[AMR][1000 genomes]
rs28789509	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28808905	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28864090	1.00[AMR][1000 genomes]
rs28890806	1.00[AMR][1000 genomes]
rs57330939	1.00[AMR][1000 genomes]
rs73286155	0.80[AFR][1000 genomes]
rs73286159	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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
5	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
6	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

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:66190400-66217000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr14:66191800-66217800	Weak transcription	Small Intestine	intestine
3	chr14:66193000-66218800	Weak transcription	Colonic Mucosa	Colon
4	chr14:66200600-66215600	Weak transcription	Brain Substantia Nigra	brain
5	chr14:66201200-66216400	Weak transcription	Fetal Thymus	thymus
6	chr14:66201800-66219200	Weak transcription	Brain Anterior Caudate	brain
7	chr14:66202200-66215000	Weak transcription	Psoas Muscle	Psoas
8	chr14:66207400-66215400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr14:66209400-66214800	Weak transcription	Primary B cells from cord blood	blood
10	chr14:66209400-66215000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr14:66209400-66217400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr14:66209400-66217600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr14:66209400-66219200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr14:66209600-66214600	Weak transcription	HSMMtube	muscle
15	chr14:66209600-66215200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr14:66209600-66216600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr14:66209600-66217800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr14:66209600-66217800	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr14:66209600-66219000	Weak transcription	Thymus	Thymus
20	chr14:66209600-66219200	Weak transcription	Stomach Mucosa	stomach
21	chr14:66210600-66217400	Weak transcription	GM12878-XiMat	blood
22	chr14:66210600-66217800	Weak transcription	Duodenum Mucosa	Duodenum
23	chr14:66210800-66217400	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr14:66211000-66218000	Weak transcription	Fetal Intestine Large	intestine
25	chr14:66211800-66217600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr14:66212400-66217800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr14:66212600-66217800	Weak transcription	HepG2	liver
28	chr14:66213400-66218000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr14:66213600-66217600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr14:66213600-66217800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr14:66213800-66215600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr14:66214400-66215200	Weak transcription	Primary T cells from cord blood	blood

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