Variant report

Variant	rs2599433
Chromosome Location	chr19:43973306-43973307
allele	C/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	CEBPB	chr19:43973222-43973524	HepG2	liver:	n/a	chr19:43973323-43973334
2	ARID3A	chr19:43973269-43973499	HepG2	liver:	n/a	n/a
3	RCOR1	chr19:43973189-43973514	HepG2	liver:	n/a	n/a
4	CEBPB	chr19:43973210-43973521	IMR90	lung:	n/a	chr19:43973323-43973334
5	TCF7L2	chr19:43973192-43973490	Hela-S3	cervix:	n/a	n/a
6	MAFK	chr19:43973274-43973476	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:43966007..43969922-chr19:43972303..43976712,7	K562	blood:
2	chr19:43973013..43975341-chr19:43978151..43982026,3	K562	blood:

Variant related genes	Relation type
LYPD3	TF binding region
ENSG00000124466	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11668793	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2260164	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2599434	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2599438	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2599441	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2599442	0.83[ASN][1000 genomes]
rs2682568	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2682582	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2682583	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35107209	0.91[ASN][1000 genomes]
rs57029828	0.89[ASN][1000 genomes]
rs60027199	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1055872	chr19:43173614-44075193	Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv544009	chr19:43173614-44075193	Enhancers ZNF genes & repeats Genic enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv1067126	chr19:43260649-44075194	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	nsv544015	chr19:43260649-44075194	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	nsv1057657	chr19:43302497-44076564	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
6	nsv1059631	chr19:43316978-44075054	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
7	nsv544030	chr19:43316978-44075054	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
8	nsv532820	chr19:43807486-44080610	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
9	nsv1056721	chr19:43808474-44095077	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
10	nsv532821	chr19:43842383-44357315	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
11	nsv1058162	chr19:43846238-44055058	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
12	nsv2501	chr19:43942581-43978424	Active TSS Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:43968800-43979200	Weak transcription	Right Atrium	heart
2	chr19:43969000-43979000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr19:43969000-43979000	Weak transcription	A549	lung
4	chr19:43969800-43979000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr19:43970000-43998200	Weak transcription	Gastric	stomach
6	chr19:43970200-43974400	Weak transcription	NHDF-Ad	bronchial
7	chr19:43970200-43977800	Weak transcription	Spleen	Spleen
8	chr19:43970400-43973400	Weak transcription	Placenta	Placenta
9	chr19:43970400-43974400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr19:43970400-43976600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr19:43970400-43979200	Weak transcription	Lung	lung
12	chr19:43971000-43973600	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr19:43971200-43973600	Enhancers	HMEC	breast
14	chr19:43971200-43973800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr19:43971200-43974600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr19:43971200-43975800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr19:43971200-43975800	Enhancers	NHEK	skin
18	chr19:43971200-43977600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr19:43971400-43973600	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr19:43971400-43973600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr19:43971400-43973600	Enhancers	HUVEC	blood vessel
22	chr19:43971400-43974400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr19:43971400-43974800	Enhancers	Fetal Thymus	thymus
24	chr19:43971400-43975800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr19:43971400-43977000	Enhancers	Primary T cells fromperipheralblood	blood
26	chr19:43971600-43973600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr19:43971600-43973800	Enhancers	Primary hematopoietic stem cells	blood
28	chr19:43971600-43975400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
29	chr19:43971600-43975800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr19:43971600-43976800	Enhancers	Primary T killer memory cells from peripheral blood	blood
31	chr19:43971600-43978600	Weak transcription	Fetal Intestine Small	intestine
32	chr19:43971800-43973400	Enhancers	Primary T cells from cord blood	blood
33	chr19:43971800-43973800	Enhancers	HepG2	liver
34	chr19:43971800-43974800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
35	chr19:43971800-43975400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
36	chr19:43971800-43977400	Enhancers	Primary T helper cells fromperipheralblood	blood
37	chr19:43972000-43973400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr19:43972000-43974200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
39	chr19:43972000-43979000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr19:43972200-43973600	Enhancers	Hela-S3	cervix
41	chr19:43972200-43974000	Enhancers	Thymus	Thymus
42	chr19:43972200-43979000	Weak transcription	NHLF	lung
43	chr19:43972200-43979200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr19:43972400-43973600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr19:43972400-43973600	Enhancers	Rectal Mucosa Donor 31	rectum
46	chr19:43972400-43973600	Enhancers	Monocytes-CD14+_RO01746	blood
47	chr19:43972400-43975200	Weak transcription	Fetal Lung	lung
48	chr19:43972400-43978600	Weak transcription	Esophagus	oesophagus
49	chr19:43972400-43978800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr19:43972400-43979000	Weak transcription	K562	blood

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