Variant report

Variant	rs56319804
Chromosome Location	chr19:23433728-23433729
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MYC	chr19:23433108-23433736	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr19:23431944-23434249	MCF10A-Er-Src	breast:	n/a	n/a
3	E2F4	chr19:23432632-23433763	MCF10A-Er-Src	breast:	n/a	chr19:23433198-23433205 chr19:23433196-23433206 chr19:23433197-23433205 chr19:23433197-23433205 chr19:23432830-23432845
4	PBX3	chr19:23432762-23433730	SK-N-SH	brain:	n/a	chr19:23433352-23433361 chr19:23433311-23433331
5	MXI1	chr19:23432518-23433775	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr19:23432656..23435103-chr19:23454271..23457071,2	MCF-7	breast:
2	chr19:23433051..23435448-chr19:23455541..23457705,2	MCF-7	breast:
3	chr19:23431827..23434798-chr19:23443635..23445528,2	MCF-7	breast:

Variant related genes	Relation type
ZNF724P	TF binding region
ENSG00000213971	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs55873367	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56333168	1.00[AMR][1000 genomes]
rs57364490	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57596652	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57903003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60707657	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60806677	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61212858	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61486059	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7245828	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7246315	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7256939	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7257647	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73559516	1.00[AMR][1000 genomes]
rs73559535	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73559537	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73559538	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73559543	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73559544	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73559557	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73559561	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73559562	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73559564	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73559571	0.93[AFR][1000 genomes]
rs73559579	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73561346	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73561348	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73561350	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73561360	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73561363	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73561376	0.86[AFR][1000 genomes]
rs73563407	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73563414	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73563418	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8110096	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34470	chr19:22922549-23659458	ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	80 gene(s)	inside rSNPs	diseases
2	esv34907	chr19:22922549-23683097	Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	80 gene(s)	inside rSNPs	diseases
3	nsv9686	chr19:22989454-23653750	Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	76 gene(s)	inside rSNPs	diseases
4	nsv817826	chr19:23000745-23620632	Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	75 gene(s)	inside rSNPs	diseases
5	esv3693269	chr19:23000745-23652839	Weak transcription Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	76 gene(s)	inside rSNPs	diseases
6	esv2758491	chr19:23071299-23940467	ZNF genes & repeats Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	87 gene(s)	inside rSNPs	diseases
7	nsv1065157	chr19:23091826-23812323	Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	83 gene(s)	inside rSNPs	diseases
8	nsv543959	chr19:23091826-23812323	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	83 gene(s)	inside rSNPs	diseases
9	esv3424935	chr19:23111817-23495542	Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
10	esv3429878	chr19:23246650-23590744	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
11	esv3410568	chr19:23246670-23590714	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
12	esv3433243	chr19:23249108-23585814	Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
13	esv3387823	chr19:23265885-23590028	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
14	esv3321838	chr19:23303462-23482478	Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
15	esv3487542	chr19:23310521-23438770	ZNF genes & repeats Strong transcription Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
16	esv3487543	chr19:23310521-23438770	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
17	nsv833789	chr19:23329463-23487797	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
18	esv3440847	chr19:23361380-23481908	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
19	esv3446056	chr19:23361400-23481878	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
20	nsv579033	chr19:23387788-23461424	Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
21	nsv579034	chr19:23387788-23610784	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
22	nsv833790	chr19:23405972-23557520	ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
23	nsv961201	chr19:23410491-23434921	ZNF genes & repeats Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:23431400-23433800	Active TSS	ES-I3 Cell Line	embryonic stem cell
2	chr19:23431600-23433800	Active TSS	HUES48 Cell Line	embryonic stem cell
3	chr19:23431600-23433800	Active TSS	iPS-20b Cell Line	embryonic stem cell
4	chr19:23431600-23433800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr19:23431800-23433800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr19:23431800-23433800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr19:23432200-23433800	Active TSS	Fetal Lung	lung
8	chr19:23432200-23433800	Active TSS	Placenta Amnion	Placenta Amnion
9	chr19:23433200-23436800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr19:23433200-23437400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr19:23433200-23438000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr19:23433200-23441400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr19:23433200-23441400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr19:23433200-23441400	Weak transcription	Aorta	Aorta
15	chr19:23433200-23441400	Weak transcription	Lung	lung
16	chr19:23433200-23441600	Weak transcription	Fetal Heart	heart
17	chr19:23433200-23441600	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr19:23433200-23441800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr19:23433200-23442000	Weak transcription	Left Ventricle	heart
20	chr19:23433200-23442000	Weak transcription	Spleen	Spleen
21	chr19:23433200-23442400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr19:23433200-23442400	Weak transcription	Esophagus	oesophagus
23	chr19:23433200-23442600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr19:23433200-23455000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr19:23433200-23456200	Weak transcription	Small Intestine	intestine
26	chr19:23433400-23433800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr19:23433400-23436200	Weak transcription	Brain Hippocampus Middle	brain
28	chr19:23433400-23438600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr19:23433400-23438600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr19:23433400-23441400	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr19:23433400-23441400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr19:23433400-23441400	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr19:23433400-23441400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr19:23433400-23441400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr19:23433400-23441400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr19:23433400-23441400	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr19:23433400-23441400	Weak transcription	Colonic Mucosa	Colon
38	chr19:23433400-23441400	Weak transcription	Fetal Muscle Leg	muscle
39	chr19:23433400-23441400	Weak transcription	Placenta	Placenta
40	chr19:23433400-23441400	Weak transcription	Pancreas	Pancrea
41	chr19:23433400-23441400	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr19:23433400-23441600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
43	chr19:23433400-23441600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr19:23433400-23441600	Weak transcription	Liver	Liver
45	chr19:23433400-23441600	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr19:23433400-23441600	Weak transcription	HSMM	muscle
47	chr19:23433400-23442000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr19:23433400-23442000	Weak transcription	Gastric	stomach
49	chr19:23433400-23442600	Weak transcription	Colon Smooth Muscle	Colon
50	chr19:23433400-23450400	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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