Variant report

Variant	rs1539068
Chromosome Location	chr13:95950858-95950859
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	chr13:95948695..95951282-chr13:96033304..96035769,2	MCF-7	breast:
2	chr13:95950632..95952981-chr13:95955199..95956850,2	K562	blood:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12861243	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12865420	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12868593	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17189561	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35034573	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35303481	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35372225	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35919669	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35983969	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55715291	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72645834	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72645835	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7324540	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:31 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533659	chr13:95757713-96042149	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1043019	chr13:95924585-96152616	Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv900926	chr13:95927386-95972496	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv900927	chr13:95927386-95975185	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv456078	chr13:95929888-95972496	Enhancers Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv562770	chr13:95929888-95972496	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv900929	chr13:95930072-95972496	Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv900930	chr13:95930072-95975185	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv1037673	chr13:95930191-96146554	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv541882	chr13:95930191-96146554	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv900931	chr13:95930685-95972496	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv1039391	chr13:95931369-96038728	Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	nsv471169	chr13:95931992-95972496	Bivalent/Poised TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv517610	chr13:95931992-96035883	Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
15	nsv1047208	chr13:95935757-96036053	Enhancers Bivalent/Poised TSS ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
16	nsv1044162	chr13:95936858-96032829	Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
17	nsv1044131	chr13:95939874-96016445	Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
18	nsv1040348	chr13:95939874-96032829	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
19	nsv1042622	chr13:95939874-96038728	Enhancers Bivalent/Poised TSS Genic enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
20	esv2829991	chr13:95942492-95981856	Active TSS Enhancers Genic enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
21	esv3693403	chr13:95942492-95981856	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
22	nsv456079	chr13:95942492-96027507	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
23	nsv562771	chr13:95942492-96027507	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
24	nsv1049988	chr13:95942492-96038728	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
25	nsv1036031	chr13:95943731-96030662	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
26	nsv1053262	chr13:95943731-96032829	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
27	nsv456080	chr13:95943885-96015129	Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
28	nsv562772	chr13:95943885-96015129	Enhancers Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
29	nsv456081	chr13:95943885-96027507	Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
30	nsv562773	chr13:95943885-96027507	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
31	nsv1047902	chr13:95945118-96032829	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:95920200-95952800	Weak transcription	Aorta	Aorta
2	chr13:95924600-95952600	Weak transcription	Primary hematopoietic stem cells	blood
3	chr13:95926600-95952400	Weak transcription	Brain Hippocampus Middle	brain
4	chr13:95933000-95952600	Weak transcription	Primary T cells from cord blood	blood
5	chr13:95933400-95952600	Weak transcription	Fetal Stomach	stomach
6	chr13:95933600-95951000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr13:95933800-95952400	Weak transcription	HSMM	muscle
8	chr13:95933800-95952400	Weak transcription	NHDF-Ad	bronchial
9	chr13:95934000-95951600	Weak transcription	Osteobl	bone
10	chr13:95938200-95952600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr13:95938800-95952400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr13:95939000-95951400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr13:95940200-95952000	Weak transcription	Left Ventricle	heart
14	chr13:95941800-95952400	Weak transcription	Esophagus	oesophagus
15	chr13:95941800-95952400	Weak transcription	Pancreas	Pancrea
16	chr13:95942000-95951000	Weak transcription	HUVEC	blood vessel
17	chr13:95943600-95952400	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr13:95943800-95952400	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr13:95945400-95951000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr13:95945400-95951000	Weak transcription	NHLF	lung
21	chr13:95945600-95952400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr13:95946800-95951600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr13:95947000-95952400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr13:95947600-95952400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr13:95948600-95952600	Enhancers	Fetal Intestine Large	intestine
26	chr13:95948800-95951000	Enhancers	Liver	Liver
27	chr13:95948800-95951200	Enhancers	Fetal Intestine Small	intestine
28	chr13:95948800-95952800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr13:95949000-95952400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr13:95949000-95952600	Weak transcription	Gastric	stomach
31	chr13:95949000-95952600	Weak transcription	Psoas Muscle	Psoas
32	chr13:95949200-95951600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr13:95949200-95952200	Weak transcription	Colonic Mucosa	Colon
34	chr13:95949600-95952000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr13:95949600-95952400	Enhancers	Muscle Satellite Cultured Cells	--
36	chr13:95949800-95951000	Weak transcription	Small Intestine	intestine
37	chr13:95949800-95951600	Enhancers	Lung	lung
38	chr13:95949800-95952400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr13:95949800-95952400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr13:95950000-95951000	Enhancers	Rectal Mucosa Donor 29	rectum
41	chr13:95950000-95951400	Weak transcription	Hela-S3	cervix
42	chr13:95950000-95951400	Enhancers	HepG2	liver
43	chr13:95950000-95952200	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr13:95950000-95952400	Weak transcription	Brain Substantia Nigra	brain
45	chr13:95950000-95952400	Enhancers	Duodenum Mucosa	Duodenum
46	chr13:95950000-95952400	Weak transcription	Fetal Muscle Leg	muscle
47	chr13:95950000-95952600	Weak transcription	Fetal Kidney	kidney
48	chr13:95950200-95951000	Weak transcription	Colon Smooth Muscle	Colon
49	chr13:95950200-95951000	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr13:95950200-95951200	Enhancers	Sigmoid Colon	Sigmoid Colon

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