Variant report

Variant	rs11885624
Chromosome Location	chr2:153225649-153225650
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	chr2:153194991..153197025-chr2:153223649..153226041,2	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10177081	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11898429	0.86[ASW][hapmap];0.84[LWK][hapmap];0.81[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs12614465	0.84[YRI][hapmap]
rs16831066	0.82[YRI][hapmap]
rs2346202	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs3901192	0.81[YRI][hapmap]
rs4036068	0.85[CEU][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4664109	1.00[JPT][hapmap]
rs56394896	0.86[EUR][1000 genomes]
rs57155791	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6724305	0.84[YRI][hapmap]
rs6736856	0.80[YRI][hapmap]
rs6750956	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6757207	0.92[EUR][1000 genomes]
rs9678076	0.93[AFR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834419	chr2:153179420-153381476	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1005012	chr2:153206764-153273886	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	esv3693436	chr2:153219836-153479857	Weak transcription Active TSS Enhancers Flanking Active 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	10 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	chr2:153200800-153225800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr2:153203000-153233000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr2:153206800-153240800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr2:153207600-153246400	Weak transcription	Fetal Intestine Small	intestine
5	chr2:153209400-153237000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr2:153214800-153227600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:153215000-153226000	Weak transcription	Left Ventricle	heart
8	chr2:153216600-153233400	Weak transcription	Fetal Lung	lung
9	chr2:153221800-153229600	Enhancers	HepG2	liver
10	chr2:153222600-153230600	Enhancers	Brain Hippocampus Middle	brain
11	chr2:153223200-153229600	Enhancers	Ovary	ovary
12	chr2:153223400-153227400	Weak transcription	Lung	lung
13	chr2:153223400-153227600	Enhancers	Brain Inferior Temporal Lobe	brain
14	chr2:153223400-153227600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr2:153223400-153237000	Weak transcription	Right Atrium	heart
16	chr2:153223800-153227600	Enhancers	Brain Anterior Caudate	brain
17	chr2:153224000-153226200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr2:153224000-153227800	Enhancers	NHDF-Ad	bronchial
19	chr2:153224200-153225800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr2:153224200-153226600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr2:153224200-153226600	Enhancers	Fetal Kidney	kidney
22	chr2:153224200-153226800	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr2:153224200-153226800	Enhancers	NHLF	lung
24	chr2:153224200-153228000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr2:153224200-153234600	Weak transcription	Adipose Nuclei	Adipose
26	chr2:153224400-153225800	Weak transcription	Psoas Muscle	Psoas
27	chr2:153224400-153226000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr2:153224400-153226000	Weak transcription	Gastric	stomach
29	chr2:153224400-153226200	Enhancers	Aorta	Aorta
30	chr2:153224600-153225800	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr2:153224600-153225800	Weak transcription	Small Intestine	intestine
32	chr2:153224600-153226000	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr2:153224600-153228800	Weak transcription	Colon Smooth Muscle	Colon
34	chr2:153224600-153233000	Weak transcription	Pancreas	Pancrea
35	chr2:153224800-153226000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr2:153224800-153226800	Enhancers	iPS-20b Cell Line	embryonic stem cell
37	chr2:153224800-153246000	Weak transcription	Fetal Stomach	stomach
38	chr2:153225000-153226800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr2:153225200-153225800	Enhancers	Cortex derived primary cultured neurospheres	brain
40	chr2:153225200-153226200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr2:153225200-153226400	Enhancers	Brain Angular Gyrus	brain
42	chr2:153225200-153227000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
43	chr2:153225400-153225800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr2:153225400-153226200	Enhancers	Fetal Intestine Large	intestine
45	chr2:153225400-153226200	Enhancers	Pancreatic Islets	Pancreatic Islet
46	chr2:153225400-153226200	Enhancers	Hela-S3	cervix
47	chr2:153225400-153226600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr2:153225400-153226600	Enhancers	HUES48 Cell Line	embryonic stem cell
49	chr2:153225400-153226800	Enhancers	NH-A	brain
50	chr2:153225400-153227000	Enhancers	iPS-18 Cell Line	embryonic stem cell

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