Variant report

Variant	rs11879733
Chromosome Location	chr19:44612838-44612839
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	SETDB1	chr19:44610641-44613060	U2OS	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr19:44611647..44614063-chr19:44614697..44617156,2	K562	blood:
2	chr17:58602968..58604763-chr19:44611791..44613959,2	MCF-7	breast:
3	chr19:44611565..44614380-chr19:44615671..44618988,4	MCF-7	breast:
4	chr19:44599467..44601264-chr19:44610771..44613313,2	MCF-7	breast:

Variant related genes	Relation type
ZNF225	TF binding region
ENSG00000186019	Chromatin interaction
ENSG00000259349	Chromatin interaction
ENSG00000256294	Chromatin interaction
ENSG00000062725	Chromatin interaction
ENSG00000267680	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10164312	1.00[EUR][1000 genomes]
rs10164320	1.00[EUR][1000 genomes]
rs10401773	1.00[EUR][1000 genomes]
rs10404050	1.00[EUR][1000 genomes]
rs10404791	1.00[EUR][1000 genomes]
rs10404999	1.00[EUR][1000 genomes]
rs10405366	1.00[EUR][1000 genomes]
rs10409400	1.00[EUR][1000 genomes]
rs10409475	1.00[EUR][1000 genomes]
rs10415885	1.00[EUR][1000 genomes]
rs10416649	1.00[EUR][1000 genomes]
rs10420015	1.00[EUR][1000 genomes]
rs11878317	1.00[EUR][1000 genomes]
rs11878320	1.00[EUR][1000 genomes]
rs11879265	1.00[EUR][1000 genomes]
rs11880330	1.00[EUR][1000 genomes]
rs11880794	1.00[EUR][1000 genomes]
rs11880826	1.00[EUR][1000 genomes]
rs11881355	1.00[EUR][1000 genomes]
rs11882281	1.00[EUR][1000 genomes]
rs11883048	1.00[EUR][1000 genomes]
rs11883052	1.00[EUR][1000 genomes]
rs12983129	1.00[EUR][1000 genomes]
rs13343401	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13345060	1.00[EUR][1000 genomes]
rs13345516	1.00[EUR][1000 genomes]
rs28591400	1.00[EUR][1000 genomes]
rs34863330	1.00[EUR][1000 genomes]
rs55852649	1.00[EUR][1000 genomes]
rs57614626	1.00[EUR][1000 genomes]
rs57796743	1.00[EUR][1000 genomes]
rs57956437	1.00[EUR][1000 genomes]
rs58056761	1.00[EUR][1000 genomes]
rs58271953	1.00[EUR][1000 genomes]
rs58935748	1.00[EUR][1000 genomes]
rs59205113	1.00[EUR][1000 genomes]
rs59926292	1.00[EUR][1000 genomes]
rs60064087	1.00[EUR][1000 genomes]
rs60833312	1.00[EUR][1000 genomes]
rs61233555	1.00[EUR][1000 genomes]
rs7253031	1.00[EUR][1000 genomes]
rs7254182	1.00[EUR][1000 genomes]
rs7256304	1.00[EUR][1000 genomes]
rs73554168	1.00[EUR][1000 genomes]
rs73556256	1.00[EUR][1000 genomes]
rs73556274	1.00[EUR][1000 genomes]
rs73556277	1.00[EUR][1000 genomes]
rs73556279	1.00[EUR][1000 genomes]
rs73556299	1.00[EUR][1000 genomes]
rs73558203	1.00[EUR][1000 genomes]
rs73558209	1.00[EUR][1000 genomes]
rs73558211	1.00[EUR][1000 genomes]
rs73558215	1.00[EUR][1000 genomes]
rs73558217	1.00[EUR][1000 genomes]
rs73558221	1.00[EUR][1000 genomes]
rs73558222	1.00[EUR][1000 genomes]
rs73558227	1.00[EUR][1000 genomes]
rs73558248	1.00[EUR][1000 genomes]
rs73558256	1.00[EUR][1000 genomes]
rs73558264	1.00[EUR][1000 genomes]
rs73558286	1.00[EUR][1000 genomes]
rs73558298	1.00[EUR][1000 genomes]
rs73558301	1.00[EUR][1000 genomes]
rs73562181	1.00[EUR][1000 genomes]
rs73562184	1.00[EUR][1000 genomes]
rs73562187	1.00[EUR][1000 genomes]
rs73562192	1.00[EUR][1000 genomes]
rs73562196	1.00[EUR][1000 genomes]
rs73564015	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73932846	1.00[EUR][1000 genomes]
rs8100906	1.00[EUR][1000 genomes]
rs8100990	1.00[EUR][1000 genomes]
rs8101607	1.00[EUR][1000 genomes]
rs8102859	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833840	chr19:44520620-44715760	Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:44600400-44616200	ZNF genes & repeats	Liver	Liver
2	chr19:44600800-44614000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr19:44600800-44614600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr19:44604200-44613000	ZNF genes & repeats	Adipose Nuclei	Adipose
5	chr19:44604800-44616000	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
6	chr19:44605200-44614600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr19:44605800-44613000	ZNF genes & repeats	Fetal Lung	lung
8	chr19:44606600-44616400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
9	chr19:44607000-44613000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr19:44607800-44613000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
11	chr19:44608000-44613000	ZNF genes & repeats	Brain Germinal Matrix	brain
12	chr19:44608200-44613000	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
13	chr19:44608200-44613800	ZNF genes & repeats	Primary B cells from cord blood	blood
14	chr19:44608200-44614600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr19:44608200-44615800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr19:44608400-44614400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr19:44608400-44614600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
18	chr19:44608400-44616000	ZNF genes & repeats	Fetal Brain Female	brain
19	chr19:44608600-44613200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr19:44608600-44615800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
21	chr19:44609200-44613000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr19:44609200-44613000	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle
23	chr19:44609200-44613200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
24	chr19:44609800-44613000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
25	chr19:44610200-44613000	ZNF genes & repeats	Fetal Kidney	kidney
26	chr19:44610200-44613200	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
27	chr19:44610200-44614600	ZNF genes & repeats	Muscle Satellite Cultured Cells	--
28	chr19:44610400-44613000	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
29	chr19:44610400-44613000	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr19:44610400-44613000	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr19:44610400-44613000	ZNF genes & repeats	Brain Angular Gyrus	brain
32	chr19:44610400-44613000	ZNF genes & repeats	Brain Cingulate Gyrus	brain
33	chr19:44610400-44614600	ZNF genes & repeats	Fetal Brain Male	brain
34	chr19:44610600-44613000	ZNF genes & repeats	Fetal Heart	heart
35	chr19:44610600-44613000	ZNF genes & repeats	HSMM	muscle
36	chr19:44612000-44616200	Weak transcription	HepG2	liver
37	chr19:44612200-44616000	Weak transcription	Fetal Thymus	thymus
38	chr19:44612400-44613200	Strong transcription	Cortex derived primary cultured neurospheres	brain
39	chr19:44612400-44614800	Weak transcription	Fetal Intestine Large	intestine
40	chr19:44612400-44615200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr19:44612400-44616000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr19:44612400-44616000	Weak transcription	Pancreas	Pancrea
43	chr19:44612400-44616200	Weak transcription	Gastric	stomach
44	chr19:44612400-44616400	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr19:44612600-44614000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr19:44612600-44614400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr19:44612600-44615600	Weak transcription	HSMMtube	muscle
48	chr19:44612600-44615800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr19:44612600-44616000	Weak transcription	Placenta	Placenta
50	chr19:44612800-44613600	Weak transcription	Dnd41	blood

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