Variant report

Variant	rs3955478
Chromosome Location	chr19:37397262-37397263
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10401212	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10404981	0.82[JPT][hapmap]
rs10407557	1.00[EUR][1000 genomes]
rs10408951	1.00[CEU][hapmap];0.93[JPT][hapmap];1.00[EUR][1000 genomes]
rs10409206	0.87[EUR][1000 genomes]
rs10410594	0.82[JPT][hapmap]
rs10414781	0.86[EUR][1000 genomes]
rs10414907	0.98[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs10416732	0.98[ASN][1000 genomes]
rs10416960	0.93[JPT][hapmap]
rs10418144	1.00[EUR][1000 genomes]
rs10418176	0.84[JPT][hapmap]
rs10426008	0.91[EUR][1000 genomes]
rs11084868	0.89[EUR][1000 genomes]
rs12981965	1.00[JPT][hapmap]
rs13345230	0.81[EUR][1000 genomes]
rs1624293	0.82[JPT][hapmap]
rs16971771	1.00[CEU][hapmap];0.93[JPT][hapmap];0.83[YRI][hapmap];0.99[EUR][1000 genomes]
rs16971772	1.00[CEU][hapmap];0.93[JPT][hapmap];0.83[YRI][hapmap];0.99[EUR][1000 genomes]
rs16971850	0.92[JPT][hapmap]
rs17707101	0.93[JPT][hapmap]
rs2010342	0.85[EUR][1000 genomes]
rs2385470	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28626335	1.00[EUR][1000 genomes]
rs3816391	0.86[JPT][hapmap]
rs4006391	0.86[EUR][1000 genomes]
rs4006392	0.86[EUR][1000 genomes]
rs4805189	0.87[CEU][hapmap];0.93[JPT][hapmap]
rs4805190	0.92[JPT][hapmap]
rs4806376	0.82[EUR][1000 genomes]
rs486466	0.88[CHB][hapmap]
rs493482	0.87[CHB][hapmap]
rs497144	0.87[ASN][1000 genomes]
rs56387564	1.00[EUR][1000 genomes]
rs566432	0.88[CHB][hapmap]
rs60293110	1.00[EUR][1000 genomes]
rs62115573	0.86[EUR][1000 genomes]
rs62115574	0.97[EUR][1000 genomes]
rs62115611	0.92[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs62115612	0.84[EUR][1000 genomes]
rs7257045	0.99[EUR][1000 genomes]
rs7257251	0.97[EUR][1000 genomes]
rs7257484	0.85[EUR][1000 genomes]
rs73626774	1.00[EUR][1000 genomes]
rs8101922	1.00[EUR][1000 genomes]
rs8112709	0.83[ASN][1000 genomes]
rs9304878	1.00[CEU][hapmap];0.93[JPT][hapmap];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 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	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
7	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
8	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
9	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
10	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
11	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
12	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
13	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
14	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
15	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
16	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
17	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
18	nsv523848	chr19:37357289-37487632	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS 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	7 gene(s)	inside rSNPs	diseases
19	nsv524754	chr19:37383894-37403224	ZNF genes & repeats Weak transcription Strong transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37344400-37406400	ZNF genes & repeats	Liver	Liver
2	chr19:37346400-37404600	ZNF genes & repeats	Adipose Nuclei	Adipose
3	chr19:37353400-37405000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr19:37373800-37403400	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
5	chr19:37374000-37400400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr19:37374000-37405400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr19:37374200-37404200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
8	chr19:37374400-37400400	ZNF genes & repeats	Fetal Brain Female	brain
9	chr19:37374400-37406400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr19:37374600-37400400	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr19:37379400-37400400	ZNF genes & repeats	Primary T cells from cord blood	blood
12	chr19:37379600-37399600	ZNF genes & repeats	Ovary	ovary
13	chr19:37380000-37399800	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
14	chr19:37380400-37405000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr19:37385200-37398200	Weak transcription	Fetal Thymus	thymus
16	chr19:37388200-37399400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr19:37388800-37399600	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
18	chr19:37389000-37399600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr19:37390000-37399400	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
20	chr19:37391600-37400000	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
21	chr19:37391600-37400400	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
22	chr19:37391600-37400400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
23	chr19:37391600-37403200	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
24	chr19:37391800-37399600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr19:37391800-37400000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr19:37391800-37400200	Strong transcription	Osteobl	bone
27	chr19:37392200-37398200	Weak transcription	NH-A	brain
28	chr19:37392600-37399400	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
29	chr19:37392600-37400200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr19:37392800-37398600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr19:37392800-37399000	Strong transcription	Fetal Muscle Trunk	muscle
32	chr19:37393000-37397600	Strong transcription	Stomach Smooth Muscle	stomach
33	chr19:37393000-37400200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr19:37393000-37406200	Weak transcription	HUVEC	blood vessel
35	chr19:37393200-37398600	Weak transcription	HSMMtube	muscle
36	chr19:37393400-37398600	Weak transcription	Right Ventricle	heart
37	chr19:37393400-37398800	Weak transcription	Pancreas	Pancrea
38	chr19:37393400-37406000	Weak transcription	NHLF	lung
39	chr19:37394000-37398800	Weak transcription	Esophagus	oesophagus
40	chr19:37394000-37399600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr19:37394200-37398600	ZNF genes & repeats	Fetal Kidney	kidney
42	chr19:37394200-37399400	Strong transcription	Placenta Amnion	Placenta Amnion
43	chr19:37394200-37400200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
44	chr19:37394200-37402400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr19:37394400-37399600	Strong transcription	Skeletal Muscle Male	skeletal muscle
46	chr19:37394400-37404200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
47	chr19:37394800-37398800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr19:37394800-37399600	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr19:37395000-37398200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr19:37395000-37398800	Strong transcription	Rectal Smooth Muscle	rectum

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