Variant report

Variant	rs28520235
Chromosome Location	chr15:100200141-100200142
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	chr15:100192802..100195103-chr15:100198355..100201059,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs12101528	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs13329194	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28497795	0.84[AFR][1000 genomes]
rs28834979	0.93[AFR][1000 genomes]
rs28838709	0.89[AFR][1000 genomes]
rs8039892	0.93[AFR][1000 genomes]
rs8042600	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036346	chr15:99752391-100365458	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv542520	chr15:99752391-100365458	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer 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	47 gene(s)	inside rSNPs	diseases
3	nsv817201	chr15:99839238-100537341	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv1038005	chr15:100170414-100633714	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	nsv542522	chr15:100170414-100633714	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv904559	chr15:100174907-100255046	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
7	nsv904560	chr15:100196657-100339331	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:100159000-100253000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:100159600-100200400	Weak transcription	Aorta	Aorta
3	chr15:100160800-100215200	Weak transcription	Ovary	ovary
4	chr15:100168200-100214600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr15:100171200-100232800	Weak transcription	Esophagus	oesophagus
6	chr15:100171200-100248800	Weak transcription	Gastric	stomach
7	chr15:100172000-100230800	Weak transcription	Stomach Mucosa	stomach
8	chr15:100175000-100208800	Weak transcription	Brain Substantia Nigra	brain
9	chr15:100175000-100208800	Weak transcription	Rectal Smooth Muscle	rectum
10	chr15:100175000-100211600	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr15:100176800-100208800	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr15:100176800-100215200	Weak transcription	Brain Germinal Matrix	brain
13	chr15:100179200-100232600	Weak transcription	Colonic Mucosa	Colon
14	chr15:100181600-100211600	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr15:100181600-100215200	Weak transcription	Spleen	Spleen
16	chr15:100181600-100215600	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr15:100181800-100214600	Weak transcription	Thymus	Thymus
18	chr15:100181800-100232800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr15:100182000-100211400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr15:100182200-100211600	Weak transcription	Duodenum Mucosa	Duodenum
21	chr15:100185400-100207600	Weak transcription	HepG2	liver
22	chr15:100186800-100214600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr15:100186800-100214600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr15:100187000-100214800	Weak transcription	Fetal Kidney	kidney
25	chr15:100187200-100204400	Weak transcription	Fetal Thymus	thymus
26	chr15:100187600-100214600	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr15:100187800-100200400	Weak transcription	Psoas Muscle	Psoas
28	chr15:100187800-100202800	Weak transcription	Colon Smooth Muscle	Colon
29	chr15:100187800-100211800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr15:100187800-100212200	Weak transcription	Primary hematopoietic stem cells	blood
31	chr15:100187800-100212800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr15:100187800-100214600	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr15:100187800-100214600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr15:100187800-100214600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr15:100188000-100208800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr15:100188000-100211800	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr15:100188200-100209000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr15:100188400-100215000	Weak transcription	A549	lung
39	chr15:100189000-100215400	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr15:100190600-100214600	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr15:100190600-100222600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
42	chr15:100190800-100208800	Weak transcription	Brain Hippocampus Middle	brain
43	chr15:100190800-100214600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr15:100191400-100214600	Weak transcription	Stomach Smooth Muscle	stomach
45	chr15:100191800-100202600	Weak transcription	Fetal Muscle Leg	muscle
46	chr15:100191800-100211600	Weak transcription	Primary neutrophils fromperipheralblood	blood
47	chr15:100191800-100212600	Weak transcription	Primary T cells fromperipheralblood	blood
48	chr15:100192000-100202600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr15:100192000-100207400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr15:100192000-100210800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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