Variant report

Variant	rs4693772
Chromosome Location	chr4:87404673-87404674
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	chr4:87372099..87374622-chr4:87404091..87405655,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109339	Chromatin interaction

Extended variants
information (count: 102 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10023787	0.82[ASN][1000 genomes]
rs10031843	0.80[ASN][1000 genomes]
rs11097115	0.80[ASN][1000 genomes]
rs11943428	0.80[ASN][1000 genomes]
rs11947775	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17011924	0.94[ASN][1000 genomes]
rs17418221	0.89[ASN][1000 genomes]
rs17418531	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs17418801	0.97[ASN][1000 genomes]
rs17418878	0.95[ASN][1000 genomes]
rs17452467	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs17452556	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28483710	0.83[ASN][1000 genomes]
rs28529445	0.80[ASN][1000 genomes]
rs4235081	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4277747	0.86[ASN][1000 genomes]
rs4404513	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4405982	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4407468	0.93[ASN][1000 genomes]
rs4452393	0.91[ASN][1000 genomes]
rs4466012	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4511966	0.91[ASN][1000 genomes]
rs4513526	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs4529013	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4552430	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4607180	0.93[ASN][1000 genomes]
rs4622964	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4640633	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4693147	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4693776	0.93[ASN][1000 genomes]
rs4693777	0.91[ASN][1000 genomes]
rs55653332	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55654230	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs55660529	0.95[ASN][1000 genomes]
rs55722156	0.97[ASN][1000 genomes]
rs55746316	0.83[ASN][1000 genomes]
rs55757426	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs55773619	0.83[ASN][1000 genomes]
rs55814693	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs55842318	0.93[ASN][1000 genomes]
rs55872468	0.93[ASN][1000 genomes]
rs55879246	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs55881335	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs55908925	0.93[ASN][1000 genomes]
rs55930543	0.93[ASN][1000 genomes]
rs55969415	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs55982489	0.93[ASN][1000 genomes]
rs56009992	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56150118	0.80[ASN][1000 genomes]
rs56164000	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56178389	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs56222033	0.95[ASN][1000 genomes]
rs56296936	0.83[ASN][1000 genomes]
rs56348925	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs56353461	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59644743	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61152200	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6531932	0.82[ASN][1000 genomes]
rs67341369	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs67523832	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs67928053	0.83[ASN][1000 genomes]
rs6822396	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6838659	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6847139	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72664002	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs72665711	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72665712	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72665714	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72665719	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72665722	0.94[ASN][1000 genomes]
rs72665724	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72665725	0.94[ASN][1000 genomes]
rs72665729	0.93[ASN][1000 genomes]
rs72665734	0.93[ASN][1000 genomes]
rs72665736	0.93[ASN][1000 genomes]
rs72665737	0.93[ASN][1000 genomes]
rs72665738	0.93[ASN][1000 genomes]
rs72665740	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72665744	0.93[ASN][1000 genomes]
rs72665746	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72665752	0.93[ASN][1000 genomes]
rs72665753	0.91[ASN][1000 genomes]
rs72665756	0.91[ASN][1000 genomes]
rs72665759	0.85[ASN][1000 genomes]
rs72665762	0.85[ASN][1000 genomes]
rs72665769	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs72665771	0.83[ASN][1000 genomes]
rs72665772	0.80[ASN][1000 genomes]
rs7435744	0.91[ASN][1000 genomes]
rs7673698	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7675845	0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7679269	0.86[ASN][1000 genomes]
rs7694723	0.82[ASN][1000 genomes]
rs7695011	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7697819	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9683663	0.97[ASN][1000 genomes]
rs9993042	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv594786	chr4:87076360-87609320	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
2	nsv999470	chr4:87165663-87514552	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
3	nsv537164	chr4:87165663-87514552	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
4	nsv594787	chr4:87221827-87888667	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv1012836	chr4:87279206-87643558	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87394200-87405600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:87400800-87406800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr4:87401400-87405800	Enhancers	H1 Cell Line	embryonic stem cell
4	chr4:87402200-87405000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr4:87402400-87404800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr4:87402600-87404800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr4:87403400-87404800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr4:87403400-87407200	Enhancers	Dnd41	blood
9	chr4:87403600-87405000	Enhancers	Fetal Kidney	kidney
10	chr4:87403600-87406200	Enhancers	Fetal Thymus	thymus
11	chr4:87403800-87405800	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr4:87404000-87404800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr4:87404000-87405600	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr4:87404000-87406800	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr4:87404200-87404800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr4:87404200-87405400	Enhancers	Fetal Brain Male	brain
17	chr4:87404200-87406200	Enhancers	Thymus	Thymus
18	chr4:87404400-87405000	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
19	chr4:87404400-87405800	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr4:87404600-87404800	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr4:87404600-87404800	Weak transcription	Brain Substantia Nigra	brain
22	chr4:87404600-87405200	Enhancers	Brain Germinal Matrix	brain
23	chr4:87404600-87405200	Enhancers	Fetal Stomach	stomach
24	chr4:87404600-87405400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr4:87404600-87405400	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr4:87404600-87405400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr4:87404600-87405400	Enhancers	Fetal Lung	lung
28	chr4:87404600-87405800	Enhancers	ES-I3 Cell Line	embryonic stem cell
29	chr4:87404600-87405800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr4:87404600-87405800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr4:87404600-87406000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr4:87404600-87406400	Enhancers	iPS-18 Cell Line	embryonic stem cell
33	chr4:87404600-87407000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr4:87404600-87407000	Enhancers	HUES64 Cell Line	embryonic stem cell
35	chr4:87404600-87414800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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