Variant report

Variant	rs2581474
Chromosome Location	chr15:100149778-100149779
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:100148518..100150039-chr15:100155372..100157267,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11633385	0.82[CHB][hapmap]
rs11636728	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2123930	0.86[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2439248	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2570799	0.91[CEU][hapmap];0.89[CHB][hapmap];0.87[JPT][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2570804	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2570805	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2570806	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2570813	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2570817	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2570821	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2570822	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2570927	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2570930	0.87[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2570934	0.95[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2581464	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2581465	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2581466	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2862871	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2863274	0.89[CHB][hapmap]
rs325384	0.82[ASN][1000 genomes]
rs325386	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs325389	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs325393	0.83[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs325397	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs325398	0.91[CEU][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs325412	0.81[ASN][1000 genomes]
rs325415	0.83[ASN][1000 genomes]
rs34937961	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4408523	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72760522	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72760533	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8029296	0.87[CEU][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs8034889	0.91[CEU][hapmap];1.00[JPT][hapmap];0.82[ASN][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	nsv904546	chr15:99696046-100166300	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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
5	nsv904558	chr15:100019382-100171684	ZNF genes & repeats Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	esv1798883	chr15:100124483-100153969	Genic enhancers Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:100129400-100155200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr15:100130000-100153000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr15:100132600-100154800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr15:100132800-100153200	Weak transcription	HepG2	liver
5	chr15:100133000-100153400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr15:100133000-100155000	Weak transcription	Esophagus	oesophagus
7	chr15:100133000-100157000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr15:100133000-100159200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr15:100133000-100159200	Weak transcription	A549	lung
10	chr15:100135600-100152000	Weak transcription	HSMMtube	muscle
11	chr15:100135800-100153600	Weak transcription	Colon Smooth Muscle	Colon
12	chr15:100139000-100153800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr15:100140000-100153400	Weak transcription	Fetal Intestine Small	intestine
14	chr15:100140800-100153400	Weak transcription	Fetal Intestine Large	intestine
15	chr15:100141000-100150800	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr15:100141000-100152600	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr15:100141000-100154800	Weak transcription	Brain Hippocampus Middle	brain
18	chr15:100141000-100156600	Weak transcription	Brain Angular Gyrus	brain
19	chr15:100141000-100156800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr15:100141000-100157200	Weak transcription	Fetal Kidney	kidney
21	chr15:100141200-100150400	Weak transcription	HSMM	muscle
22	chr15:100141200-100152800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr15:100141200-100154000	Weak transcription	Hela-S3	cervix
24	chr15:100141200-100154000	Weak transcription	NHDF-Ad	bronchial
25	chr15:100141800-100154200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr15:100142000-100153200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr15:100142200-100153600	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr15:100142400-100153600	Weak transcription	Fetal Lung	lung
29	chr15:100142600-100153200	Weak transcription	Small Intestine	intestine
30	chr15:100142600-100153400	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr15:100142600-100159200	Weak transcription	Gastric	stomach
32	chr15:100142800-100151600	Weak transcription	Adipose Nuclei	Adipose
33	chr15:100142800-100152600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr15:100142800-100153200	Weak transcription	Liver	Liver
35	chr15:100142800-100153600	Weak transcription	Right Atrium	heart
36	chr15:100142800-100153800	Weak transcription	Placenta	Placenta
37	chr15:100142800-100154000	Weak transcription	Primary hematopoietic stem cells	blood
38	chr15:100142800-100154400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr15:100142800-100157000	Weak transcription	Spleen	Spleen
40	chr15:100142800-100159200	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr15:100142800-100159400	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr15:100142800-100164000	Weak transcription	Fetal Thymus	thymus
43	chr15:100142800-100176400	Weak transcription	Fetal Stomach	stomach
44	chr15:100143000-100151200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr15:100143000-100155000	Weak transcription	Right Ventricle	heart
46	chr15:100143000-100163200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr15:100143800-100153800	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr15:100143800-100159200	Weak transcription	Lung	lung
49	chr15:100144000-100153400	Weak transcription	Primary monocytes fromperipheralblood	blood
50	chr15:100144000-100153600	Weak transcription	Monocytes-CD14+_RO01746	blood

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