Variant report

Variant	rs10439089
Chromosome Location	chr19:36118861-36118862
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr19:36118854-36118927	MCF-7	breast:	n/a	n/a
2	POLR2A	chr19:36118142-36119025	HepG2	liver:	n/a	n/a
3	POLR2A	chr19:36118668-36119072	K562	blood:	n/a	n/a

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:36118103..36121861-chr19:36131558..36136331,8	MCF-7	breast:
2	chr19:36034987..36038890-chr19:36118307..36121069,4	MCF-7	breast:
3	chr19:36053526..36055701-chr19:36117246..36119679,2	MCF-7	breast:
4	chr19:35756917..35760158-chr19:36118192..36121519,3	K562	blood:
5	chr19:36118147..36121531-chr19:36133247..36136800,5	MCF-7	breast:
6	chr19:36102107..36105519-chr19:36117943..36120957,6	MCF-7	breast:
7	chr19:36114642..36116458-chr19:36117906..36119551,2	MCF-7	breast:
8	chr19:36102330..36105424-chr19:36117998..36119603,3	MCF-7	breast:
9	chr19:36118444..36125285-chr19:36125367..36133017,11	MCF-7	breast:
10	chr19:36118346..36121729-chr19:36137061..36140850,4	MCF-7	breast:

No data

Variant related genes	Relation type
RBM42	TF binding region
ENSG00000249115	Chromatin interaction
ENSG00000105677	Chromatin interaction
ENSG00000105672	Chromatin interaction
ENSG00000126267	Chromatin interaction
ENSG00000105698	Chromatin interaction
ENSG00000267626	Chromatin interaction
ENSG00000105699	Chromatin interaction
ENSG00000236144	Chromatin interaction
ENSG00000105675	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10410294	0.83[ASN][1000 genomes]
rs10415676	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12461025	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1858844	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1989801	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2285413	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3814983	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3826999	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4447555	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6510501	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs739453	0.81[ASN][1000 genomes]
rs8100735	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8106576	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8107941	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8113090	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9304873	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432045	chr19:35556260-36520760	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv1060100	chr19:35658505-36170042	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv543993	chr19:35658505-36170042	Enhancers Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
4	esv2599797	chr19:36117682-36119524	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region Chromatin interactive region	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:36104200-36119000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr19:36104200-36119000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr19:36104200-36119000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr19:36104200-36119000	Weak transcription	Colonic Mucosa	Colon
5	chr19:36104200-36119000	Weak transcription	Psoas Muscle	Psoas
6	chr19:36104200-36119000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr19:36104200-36119000	Weak transcription	HSMMtube	muscle
8	chr19:36104200-36119200	Weak transcription	Aorta	Aorta
9	chr19:36104400-36119000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr19:36104400-36119000	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr19:36104400-36119000	Weak transcription	Colon Smooth Muscle	Colon
12	chr19:36104400-36119000	Weak transcription	Small Intestine	intestine
13	chr19:36104400-36119000	Weak transcription	HSMM	muscle
14	chr19:36104400-36119000	Weak transcription	HUVEC	blood vessel
15	chr19:36104400-36119000	Weak transcription	NHDF-Ad	bronchial
16	chr19:36104400-36119000	Weak transcription	Osteobl	bone
17	chr19:36104400-36119200	Weak transcription	NH-A	brain
18	chr19:36104800-36119000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr19:36104800-36119000	Weak transcription	K562	blood
20	chr19:36104800-36119200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr19:36104800-36119200	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr19:36108000-36119000	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr19:36108800-36119000	Weak transcription	GM12878-XiMat	blood
24	chr19:36108800-36119000	Weak transcription	NHEK	skin
25	chr19:36109200-36119000	Weak transcription	HMEC	breast
26	chr19:36110000-36119000	Weak transcription	Right Ventricle	heart
27	chr19:36110200-36119200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr19:36111800-36119000	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr19:36111800-36119000	Weak transcription	Adipose Nuclei	Adipose
30	chr19:36111800-36119000	Weak transcription	Brain Angular Gyrus	brain
31	chr19:36111800-36119000	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr19:36111800-36119000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr19:36111800-36119000	Weak transcription	Brain Substantia Nigra	brain
34	chr19:36111800-36119000	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr19:36111800-36119000	Weak transcription	Lung	lung
36	chr19:36111800-36119000	Weak transcription	Pancreas	Pancrea
37	chr19:36111800-36119200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr19:36112000-36119000	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr19:36112000-36119000	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr19:36112000-36119000	Weak transcription	Liver	Liver
41	chr19:36112000-36119000	Weak transcription	A549	lung
42	chr19:36112000-36119200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr19:36112000-36119200	Weak transcription	Esophagus	oesophagus
44	chr19:36112200-36119000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr19:36112200-36119000	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr19:36112200-36119000	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr19:36112200-36119000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr19:36112200-36119000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
49	chr19:36112200-36119000	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr19:36112200-36119000	Weak transcription	Duodenum Mucosa	Duodenum

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