Variant report

Variant	rs28562808
Chromosome Location	chr4:153000654-153000655
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	chr4:152994994..152996876-chr4:152998778..153001469,2	MCF-7	breast:
2	chr4:152994631..152998650-chr4:152999260..153001615,3	K562	blood:

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

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10003345	1.00[AMR][1000 genomes]
rs10013460	1.00[AMR][1000 genomes]
rs10013642	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10025820	1.00[AMR][1000 genomes]
rs10032354	0.93[AFR][1000 genomes]
rs10032430	1.00[AMR][1000 genomes]
rs11940799	0.87[AFR][1000 genomes]
rs1425400	1.00[AMR][1000 genomes]
rs1425401	1.00[AMR][1000 genomes]
rs2051	0.91[AFR][1000 genomes]
rs28498454	0.95[AFR][1000 genomes]
rs28573237	0.95[AFR][1000 genomes]
rs28585419	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28603056	1.00[AMR][1000 genomes]
rs28634294	0.98[AFR][1000 genomes]
rs28640127	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28681446	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72953023	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9999071	1.00[AMR][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	nsv432644	chr4:152635395-153023402	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv880341	chr4:152861685-153110256	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv931416	chr4:152877808-153440553	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152983800-153000800	Enhancers	Fetal Thymus	thymus
2	chr4:152995400-153000800	Enhancers	Primary T cells from cord blood	blood
3	chr4:152996600-153002800	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr4:152997400-153011800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr4:152997600-153003400	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr4:152998600-153001000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr4:152998800-153003800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
8	chr4:152999800-153003200	Enhancers	Primary T cells fromperipheralblood	blood
9	chr4:152999800-153003600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
10	chr4:153000000-153001200	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr4:153000000-153002600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr4:153000000-153002600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
13	chr4:153000000-153002600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr4:153000000-153003000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
15	chr4:153000000-153003600	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr4:153000200-153001600	Flanking Active TSS	Dnd41	blood
17	chr4:153000400-153001200	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr4:153000400-153001200	Flanking Active TSS	Thymus	Thymus
19	chr4:153000400-153002200	Enhancers	Primary B cells from cord blood	blood
20	chr4:153000600-153001000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr4:153000600-153001400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr4:153000600-153001400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
23	chr4:153000600-153001400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
24	chr4:153000600-153002400	Enhancers	Primary B cells from peripheral blood	blood

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