Variant report

Variant	rs16828387
Chromosome Location	chr2:151474999-151475000
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	chr2:151341617..151344391-chr2:151474277..151478282,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115963	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs16828502	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16828562	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16828581	0.95[EUR][1000 genomes]
rs34463872	0.80[AFR][1000 genomes]
rs6731904	0.80[ASN][1000 genomes]
rs6739921	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6751079	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72867408	0.85[ASN][1000 genomes]
rs72867428	1.00[ASN][1000 genomes]
rs72867442	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72867459	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72867486	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72869138	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869142	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869146	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869148	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869150	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869151	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869154	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869167	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869169	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869179	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869182	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869188	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869189	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72869196	0.86[EUR][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	nsv1001838	chr2:150819672-151745876	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv535980	chr2:150819672-151745876	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv532473	chr2:151164210-151701860	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats 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	nsv834415	chr2:151374254-151558649	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	esv2757836	chr2:151457277-151844210	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	esv2759096	chr2:151457277-151844210	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:151464400-151476200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:151467000-151475600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr2:151467400-151476200	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr2:151467400-151476200	Weak transcription	Osteobl	bone
5	chr2:151468200-151480000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr2:151470000-151477600	Weak transcription	Fetal Muscle Leg	muscle
7	chr2:151470200-151476200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr2:151470200-151476600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr2:151470200-151476600	Weak transcription	Right Atrium	heart
10	chr2:151470200-151477600	Weak transcription	Rectal Smooth Muscle	rectum
11	chr2:151470200-151480400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr2:151470400-151475200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr2:151470600-151476200	Weak transcription	Colon Smooth Muscle	Colon
14	chr2:151470800-151476600	Weak transcription	Fetal Lung	lung
15	chr2:151471800-151476200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr2:151473000-151487000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr2:151473800-151476200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr2:151473800-151479400	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr2:151474000-151476200	Enhancers	HSMMtube	muscle
20	chr2:151474000-151479600	Enhancers	NHDF-Ad	bronchial
21	chr2:151474200-151475000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr2:151474200-151475200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr2:151474200-151476200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr2:151474200-151476200	Enhancers	HSMM	muscle
25	chr2:151474200-151479400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr2:151474200-151479400	Enhancers	HMEC	breast
27	chr2:151474200-151479600	Enhancers	NH-A	brain
28	chr2:151474400-151475200	Enhancers	Placenta Amnion	Placenta Amnion
29	chr2:151474400-151475200	Enhancers	Hela-S3	cervix
30	chr2:151474400-151476200	Enhancers	Muscle Satellite Cultured Cells	--
31	chr2:151474400-151480200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr2:151474600-151475000	Enhancers	Adipose Nuclei	Adipose
33	chr2:151474600-151475200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr2:151474600-151475200	Enhancers	NHEK	skin
35	chr2:151474600-151476200	Weak transcription	NHLF	lung
36	chr2:151474600-151477600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr2:151474800-151477600	Weak transcription	Aorta	Aorta

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