Variant report

Variant	rs28816070
Chromosome Location	chr15:55603379-55603380
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:55603075..55606737-chr15:55608519..55611756,5	K562	blood:
2	chr15:55601212..55603506-chr15:55611537..55613795,2	MCF-7	breast:
3	chr15:55577997..55580916-chr15:55603109..55605324,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000069974	Chromatin interaction
ENSG00000225973	Chromatin interaction
ENSG00000069943	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12917362	1.00[EUR][1000 genomes]
rs28773006	1.00[EUR][1000 genomes]
rs28800886	1.00[EUR][1000 genomes]
rs61753409	1.00[EUR][1000 genomes]
rs62019993	1.00[EUR][1000 genomes]
rs628438	1.00[EUR][1000 genomes]
rs649709	1.00[EUR][1000 genomes]
rs691062	1.00[EUR][1000 genomes]
rs7171076	1.00[EUR][1000 genomes]
rs7174449	1.00[EUR][1000 genomes]
rs7180984	1.00[EUR][1000 genomes]
rs8024917	1.00[EUR][1000 genomes]
rs8026616	1.00[EUR][1000 genomes]
rs8026815	1.00[EUR][1000 genomes]
rs8027015	1.00[EUR][1000 genomes]
rs8032778	1.00[EUR][1000 genomes]
rs8034383	1.00[EUR][1000 genomes]
rs8035790	1.00[EUR][1000 genomes]
rs8043147	1.00[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	nsv1042741	chr15:55068022-55622497	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers 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	31 gene(s)	inside rSNPs	diseases
2	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats 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
4	nsv1036924	chr15:55527874-55616480	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv1051046	chr15:55529291-55821973	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
6	nsv569522	chr15:55532211-55611126	Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv904241	chr15:55534342-55611126	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv1036173	chr15:55547689-55812194	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
9	nsv542391	chr15:55547689-55812194	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
10	nsv904242	chr15:55550755-55611126	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
11	nsv569523	chr15:55555602-55836704	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
12	nsv569524	chr15:55558624-55612511	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
13	nsv1040917	chr15:55562940-55943942	Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
14	nsv531054	chr15:55571230-55914205	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55583200-55603400	Weak transcription	Rectal Smooth Muscle	rectum
2	chr15:55583200-55604400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr15:55583200-55610400	Weak transcription	Pancreas	Pancrea
4	chr15:55583400-55604400	Weak transcription	A549	lung
5	chr15:55590000-55604600	Weak transcription	K562	blood
6	chr15:55591800-55603600	Weak transcription	Ovary	ovary
7	chr15:55593400-55603800	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr15:55593800-55604800	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr15:55593800-55605200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr15:55594400-55603400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr15:55594400-55604800	Weak transcription	Brain Substantia Nigra	brain
12	chr15:55594800-55603600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr15:55594800-55603600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr15:55594800-55603600	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr15:55594800-55604000	Weak transcription	Right Ventricle	heart
16	chr15:55595000-55603400	Weak transcription	Brain Hippocampus Middle	brain
17	chr15:55595000-55603600	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr15:55595400-55603800	Weak transcription	Brain Anterior Caudate	brain
19	chr15:55595400-55604800	Weak transcription	HSMM	muscle
20	chr15:55595600-55603600	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr15:55596600-55604800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr15:55597000-55604000	Weak transcription	Colonic Mucosa	Colon
23	chr15:55597000-55604400	Weak transcription	GM12878-XiMat	blood
24	chr15:55597000-55606400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr15:55597000-55610600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:55597200-55604000	Weak transcription	Psoas Muscle	Psoas
27	chr15:55597400-55604600	Weak transcription	Fetal Kidney	kidney
28	chr15:55597400-55610600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr15:55597600-55610000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr15:55597800-55603800	Weak transcription	Dnd41	blood
31	chr15:55598000-55603400	Weak transcription	Colon Smooth Muscle	Colon
32	chr15:55598000-55604000	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr15:55598000-55609800	Weak transcription	Fetal Brain Male	brain
34	chr15:55599000-55609000	Weak transcription	Brain Angular Gyrus	brain
35	chr15:55599000-55610800	Weak transcription	Aorta	Aorta
36	chr15:55599400-55603400	Weak transcription	Fetal Intestine Small	intestine
37	chr15:55599600-55603800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr15:55599800-55603600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr15:55599800-55603600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr15:55599800-55603600	Weak transcription	Fetal Lung	lung
41	chr15:55600000-55603800	Weak transcription	Primary T cells from cord blood	blood
42	chr15:55600000-55604600	Weak transcription	Primary hematopoietic stem cells	blood
43	chr15:55600200-55604000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr15:55600200-55604600	Weak transcription	Primary B cells from cord blood	blood
45	chr15:55601000-55603800	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr15:55601000-55605200	Weak transcription	HepG2	liver
47	chr15:55601200-55605800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
48	chr15:55601400-55603400	Weak transcription	Small Intestine	intestine
49	chr15:55601400-55604600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr15:55601400-55606000	Strong transcription	Fetal Muscle Trunk	muscle

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