Variant report

Variant	rs477942
Chromosome Location	chr19:37346388-37346389
allele	A/C
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	FOXA2	chr19:37345829-37346402	A549	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr19:37338913..37342435-chr19:37343992..37346462,3	K562	blood:
2	chr19:37340586..37343118-chr19:37344104..37346997,2	MCF-7	breast:
3	chr19:37339729..37341977-chr19:37344945..37346837,2	K562	blood:

Variant related genes	Relation type
ZNF790	TF binding region
ENSG00000251247	Chromatin interaction
ENSG00000197863	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10403100	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10403306	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10403906	0.88[ASN][1000 genomes]
rs10409144	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10411509	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10418176	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10418453	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1227560	0.85[AFR][1000 genomes]
rs1423048	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34201634	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs477725	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs478272	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs486466	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs491898	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs493482	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs497144	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs502110	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs503956	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs503959	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs505896	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs506463	0.89[AFR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs531870	0.93[AFR][1000 genomes]
rs542847	0.87[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs546693	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs553981	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs555023	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs559008	0.89[AFR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs560085	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs566432	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs571074	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs577093	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs578699	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs579445	0.89[AFR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs580168	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs581194	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7256044	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73611677	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs826264	0.82[AFR][1000 genomes]
rs826276	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064851	chr19:36910259-37689721	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv1065698	chr19:36916796-37690124	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv543999	chr19:36916796-37690124	Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv529817	chr19:36930549-37654062	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
5	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
6	nsv817833	chr19:37146694-37357289	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	esv3517005	chr19:37193712-37364110	Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
8	esv3517004	chr19:37193762-37363960	ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
9	esv3517006	chr19:37193762-37363960	Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
10	nsv521605	chr19:37261810-37483444	ZNF genes & repeats Active TSS Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
11	nsv1060155	chr19:37274915-37458788	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
12	nsv544000	chr19:37274915-37458788	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
13	esv3507199	chr19:37284708-37805639	Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
14	esv3507200	chr19:37284708-37805639	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
15	esv3497360	chr19:37290273-37745365	ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers 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	25 gene(s)	inside rSNPs	diseases
16	esv3497361	chr19:37290273-37745365	Active TSS ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
17	nsv911651	chr19:37300554-37428465	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
18	esv3354270	chr19:37309161-37364929	Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
19	nsv458568	chr19:37325826-37747108	Strong transcription ZNF genes & repeats Genic enhancers Active TSS Weak transcription Enhancers Flanking Active TSS 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	22 gene(s)	inside rSNPs	diseases
20	nsv579461	chr19:37325826-37747108	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
21	nsv458569	chr19:37331614-37412887	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS 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	8 gene(s)	inside rSNPs	diseases
22	nsv579462	chr19:37331614-37412887	Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37342800-37346400	Weak transcription	Gastric	stomach
2	chr19:37342800-37346600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr19:37342800-37346600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr19:37342800-37346800	Weak transcription	Brain Anterior Caudate	brain
5	chr19:37342800-37346800	Weak transcription	Brain Substantia Nigra	brain
6	chr19:37342800-37346800	Weak transcription	Placenta	Placenta
7	chr19:37342800-37347400	Weak transcription	Psoas Muscle	Psoas
8	chr19:37342800-37348400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr19:37342800-37348600	Weak transcription	Esophagus	oesophagus
10	chr19:37342800-37348800	Weak transcription	Brain Angular Gyrus	brain
11	chr19:37342800-37353800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr19:37342800-37353800	Weak transcription	HUVEC	blood vessel
13	chr19:37342800-37355000	Weak transcription	Osteobl	bone
14	chr19:37342800-37356800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr19:37343000-37346600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr19:37343000-37346600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr19:37343000-37346600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr19:37343000-37346600	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr19:37343000-37346800	Weak transcription	NH-A	brain
20	chr19:37343000-37347000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr19:37343000-37347400	Weak transcription	Pancreas	Pancrea
22	chr19:37343000-37351400	Weak transcription	Right Ventricle	heart
23	chr19:37343400-37352600	ZNF genes & repeats	Fetal Brain Female	brain
24	chr19:37343400-37356000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr19:37343600-37358600	ZNF genes & repeats	Brain Germinal Matrix	brain
26	chr19:37343600-37359000	ZNF genes & repeats	Fetal Lung	lung
27	chr19:37344000-37350000	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr19:37344200-37350400	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr19:37344400-37346600	Strong transcription	Fetal Muscle Leg	muscle
30	chr19:37344400-37346800	Strong transcription	H1 Cell Line	embryonic stem cell
31	chr19:37344400-37347400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr19:37344400-37347800	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
33	chr19:37344400-37349200	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
34	chr19:37344400-37349800	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
35	chr19:37344400-37356000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
36	chr19:37344400-37369400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr19:37344400-37371600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr19:37344400-37406400	ZNF genes & repeats	Liver	Liver
39	chr19:37344600-37346800	Strong transcription	Primary T helper cells fromperipheralblood	blood
40	chr19:37344600-37347400	Strong transcription	Ovary	ovary
41	chr19:37344600-37347800	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
42	chr19:37344600-37348200	ZNF genes & repeats	Primary B cells from cord blood	blood
43	chr19:37344600-37348800	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
44	chr19:37344600-37352200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr19:37344600-37371600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
46	chr19:37344800-37346800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr19:37345000-37346400	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
48	chr19:37345000-37347600	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr19:37345000-37356000	ZNF genes & repeats	Fetal Intestine Large	intestine
50	chr19:37345200-37346400	ZNF genes & repeats	Lung	lung

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