Variant report

Variant	rs332862
Chromosome Location	chr19:38654044-38654045
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10460171	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11083447	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12460188	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12975576	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12984016	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12984380	0.80[ASN][1000 genomes]
rs12984864	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12985707	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1545039	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1962866	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2004981	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2010234	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2016074	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2116862	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2163817	0.85[EUR][1000 genomes]
rs2304132	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2382972	0.83[EUR][1000 genomes]
rs2382973	0.83[EUR][1000 genomes]
rs2569517	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs332845	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs332846	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs332854	0.82[EUR][1000 genomes]
rs332857	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs332859	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs332860	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs332861	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs332863	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34646932	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35467693	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35469521	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35972455	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3852910	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3852911	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4802248	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4803805	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4803808	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67910767	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs71337549	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7253312	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7253633	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7258019	0.84[EUR][1000 genomes]
rs8100956	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8107385	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs855617	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv833821	chr19:38629937-38756792	Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38638200-38667200	Strong transcription	Cortex derived primary cultured neurospheres	brain
2	chr19:38643800-38654800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr19:38644000-38659200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr19:38645600-38660800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr19:38646000-38661000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr19:38651400-38658400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr19:38652400-38656400	Strong transcription	HepG2	liver
8	chr19:38652400-38657400	Strong transcription	Brain Angular Gyrus	brain
9	chr19:38652600-38654400	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr19:38652600-38655800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr19:38652600-38656400	Strong transcription	iPS-15b Cell Line	embryonic stem cell
12	chr19:38653000-38655400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr19:38653200-38654600	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr19:38653400-38656400	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr19:38653400-38657800	Strong transcription	Colonic Mucosa	Colon
16	chr19:38653400-38658400	Strong transcription	Rectal Smooth Muscle	rectum
17	chr19:38653400-38658800	Strong transcription	Primary T helper cells fromperipheralblood	blood
18	chr19:38653400-38659600	Strong transcription	Primary B cells from cord blood	blood
19	chr19:38653400-38659600	Strong transcription	Primary T cells fromperipheralblood	blood
20	chr19:38653400-38660400	Strong transcription	GM12878-XiMat	blood
21	chr19:38653400-38661400	Strong transcription	Rectal Mucosa Donor 29	rectum
22	chr19:38653400-38663400	Strong transcription	Sigmoid Colon	Sigmoid Colon
23	chr19:38653600-38655000	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr19:38653600-38655000	Weak transcription	Stomach Mucosa	stomach
25	chr19:38653600-38656200	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr19:38653600-38656200	Strong transcription	Brain Anterior Caudate	brain
27	chr19:38653600-38656200	Strong transcription	Brain Cingulate Gyrus	brain
28	chr19:38653600-38656200	Strong transcription	Brain Inferior Temporal Lobe	brain
29	chr19:38653600-38656200	Strong transcription	HSMM	muscle
30	chr19:38653600-38656200	Strong transcription	HSMMtube	muscle
31	chr19:38653600-38656400	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr19:38653600-38656400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr19:38653600-38656400	Strong transcription	Pancreatic Islets	Pancreatic Islet
34	chr19:38653600-38656400	Strong transcription	Right Ventricle	heart
35	chr19:38653600-38657400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr19:38653600-38657600	Strong transcription	H1 Cell Line	embryonic stem cell
37	chr19:38653600-38657600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr19:38653600-38657600	Strong transcription	Left Ventricle	heart
39	chr19:38653600-38657600	Strong transcription	NH-A	brain
40	chr19:38653600-38658400	Strong transcription	Primary neutrophils fromperipheralblood	blood
41	chr19:38653600-38658600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr19:38653600-38658600	Strong transcription	Ovary	ovary
43	chr19:38653600-38659000	Weak transcription	Fetal Heart	heart
44	chr19:38653600-38659200	Strong transcription	HUES48 Cell Line	embryonic stem cell
45	chr19:38653600-38659600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
46	chr19:38653600-38659800	Weak transcription	Fetal Brain Male	brain
47	chr19:38653600-38660200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr19:38653600-38660200	Strong transcription	Primary T cells from cord blood	blood
49	chr19:38653600-38660400	Strong transcription	Muscle Satellite Cultured Cells	--
50	chr19:38653600-38661200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood

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