Variant report

Variant	rs28735538
Chromosome Location	chr4:119261699-119261700
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	chr4:119202174..119205868-chr4:119258505..119262976,4	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10002349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10003652	1.00[AMR][1000 genomes]
rs10005659	1.00[AMR][1000 genomes]
rs10007553	1.00[AMR][1000 genomes]
rs10018706	1.00[AMR][1000 genomes]
rs10019302	1.00[AFR][1000 genomes]
rs10024548	1.00[AMR][1000 genomes]
rs10025029	1.00[AMR][1000 genomes]
rs10025515	1.00[AMR][1000 genomes]
rs10028823	1.00[AMR][1000 genomes]
rs10030057	1.00[AMR][1000 genomes]
rs10030548	1.00[AFR][1000 genomes]
rs10031402	1.00[AMR][1000 genomes]
rs10032705	0.87[AFR][1000 genomes]
rs10212745	1.00[AFR][1000 genomes]
rs11931409	1.00[AMR][1000 genomes]
rs13434557	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28376814	1.00[AFR][1000 genomes]
rs28421210	0.87[AFR][1000 genomes]
rs28421577	1.00[AMR][1000 genomes]
rs28451256	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28558085	1.00[AMR][1000 genomes]
rs28567841	1.00[AMR][1000 genomes]
rs28576396	1.00[AMR][1000 genomes]
rs28579325	0.87[AFR][1000 genomes]
rs28582030	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28585079	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28610040	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28619162	1.00[AMR][1000 genomes]
rs28634343	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28665169	1.00[AMR][1000 genomes]
rs28667866	1.00[AFR][1000 genomes]
rs28669076	1.00[AMR][1000 genomes]
rs28682376	1.00[AMR][1000 genomes]
rs28713634	1.00[AFR][1000 genomes]
rs28715892	1.00[AMR][1000 genomes]
rs28740899	1.00[AMR][1000 genomes]
rs28771156	1.00[AMR][1000 genomes]
rs28823876	1.00[AMR][1000 genomes]
rs28847597	1.00[AMR][1000 genomes]
rs28886020	1.00[AMR][1000 genomes]
rs57461354	1.00[AMR][1000 genomes]
rs9307456	1.00[AMR][1000 genomes]
rs9994181	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv519017	chr4:118828807-119771481	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1009076	chr4:118949490-119269424	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv1001236	chr4:118949490-119271243	Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	esv34038	chr4:119035124-119455391	Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	nsv1001138	chr4:119095147-119461837	Active TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
6	nsv537230	chr4:119095147-119461837	Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
7	nsv1002771	chr4:119125361-119571237	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
8	nsv1003731	chr4:119138262-119506032	Active TSS Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
9	nsv482277	chr4:119261543-119408886	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:119202800-119267200	Weak transcription	Stomach Mucosa	stomach
2	chr4:119229000-119267200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr4:119253000-119262200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr4:119256800-119262000	Enhancers	NHDF-Ad	bronchial
5	chr4:119257000-119261800	Enhancers	NHLF	lung
6	chr4:119258600-119261800	Enhancers	Osteobl	bone
7	chr4:119258600-119262000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr4:119258600-119262000	Enhancers	HMEC	breast
9	chr4:119258600-119262200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr4:119259000-119262000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr4:119259200-119261800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr4:119259200-119262000	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr4:119259200-119262200	Enhancers	NHEK	skin
14	chr4:119259400-119267000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr4:119259600-119267800	Weak transcription	Fetal Brain Male	brain
16	chr4:119260400-119264400	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr4:119260600-119262000	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr4:119260600-119262000	Enhancers	Muscle Satellite Cultured Cells	--
19	chr4:119260800-119262000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr4:119261000-119261800	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr4:119261000-119262000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr4:119261200-119262000	Enhancers	HUES6 Cell Line	embryonic stem cell
23	chr4:119261200-119262200	Enhancers	HUES64 Cell Line	embryonic stem cell
24	chr4:119261200-119262200	Enhancers	iPS-15b Cell Line	embryonic stem cell
25	chr4:119261200-119262400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr4:119261200-119263400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr4:119261200-119266000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr4:119261400-119262400	Enhancers	iPS-20b Cell Line	embryonic stem cell
29	chr4:119261600-119265600	Weak transcription	Brain Germinal Matrix	brain
30	chr4:119261600-119266000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr4:119261600-119272200	Weak transcription	Fetal Brain Female	brain

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