Variant report

Variant	rs12901576
Chromosome Location	chr15:100265234-100265235
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	chr15:100262124..100264300-chr15:100264707..100266536,2	MCF-7	breast:
2	chr15:99875624..99878223-chr15:100263924..100266791,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259257	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12594983	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12902114	0.99[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs35077957	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35643336	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6598261	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6598262	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7402437	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7496665	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8025780	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 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	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
7	nsv904561	chr15:100204918-100486828	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
8	nsv428313	chr15:100236203-100757039	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
9	nsv904563	chr15:100239546-100274747	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
10	nsv570730	chr15:100240910-100700520	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats 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	22 gene(s)	inside rSNPs	diseases
11	nsv1045838	chr15:100243067-101032218	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
12	nsv904564	chr15:100245296-100723798	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
13	nsv932678	chr15:100250311-101012358	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:100244600-100272400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr15:100249600-100272800	Weak transcription	Small Intestine	intestine
3	chr15:100249800-100272200	Weak transcription	HUVEC	blood vessel
4	chr15:100251800-100271800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:100252200-100271400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr15:100253000-100271800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr15:100253200-100268400	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr15:100253600-100267600	Weak transcription	Fetal Brain Female	brain
9	chr15:100253600-100268000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr15:100253600-100268000	Weak transcription	Brain Germinal Matrix	brain
11	chr15:100253600-100268200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr15:100253600-100272400	Weak transcription	Stomach Mucosa	stomach
13	chr15:100255400-100269000	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr15:100255800-100268400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr15:100257000-100268200	Weak transcription	Gastric	stomach
16	chr15:100257200-100267800	Weak transcription	Duodenum Mucosa	Duodenum
17	chr15:100257200-100268400	Weak transcription	Liver	Liver
18	chr15:100257600-100270400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr15:100257800-100267200	Weak transcription	Rectal Smooth Muscle	rectum
20	chr15:100257800-100267600	Weak transcription	NHLF	lung
21	chr15:100258000-100267800	Weak transcription	Ovary	ovary
22	chr15:100258000-100268000	Weak transcription	Brain Anterior Caudate	brain
23	chr15:100258000-100268200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr15:100258000-100268600	Weak transcription	Colonic Mucosa	Colon
25	chr15:100258000-100268600	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr15:100258000-100272000	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr15:100258400-100268200	Weak transcription	Brain Angular Gyrus	brain
28	chr15:100258600-100268400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr15:100259000-100265800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr15:100259000-100268000	Weak transcription	Brain Hippocampus Middle	brain
31	chr15:100259000-100268000	Weak transcription	Brain Substantia Nigra	brain
32	chr15:100259000-100268200	Weak transcription	Brain Cingulate Gyrus	brain
33	chr15:100259200-100270200	Weak transcription	Fetal Kidney	kidney
34	chr15:100259400-100268400	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr15:100259800-100268000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr15:100259800-100268800	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr15:100259800-100272200	Weak transcription	Osteobl	bone
38	chr15:100260000-100268200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr15:100260000-100270000	Weak transcription	NHDF-Ad	bronchial
40	chr15:100261000-100268200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr15:100261000-100268200	Weak transcription	Stomach Smooth Muscle	stomach
42	chr15:100261200-100268000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr15:100261200-100268800	Weak transcription	Fetal Lung	lung
44	chr15:100261600-100268000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr15:100261600-100268200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr15:100261600-100269000	Weak transcription	Colon Smooth Muscle	Colon
47	chr15:100261600-100272400	Weak transcription	Primary B cells from peripheral blood	blood
48	chr15:100261800-100267800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr15:100261800-100267800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr15:100261800-100268000	Weak transcription	Aorta	Aorta

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