Variant report

Variant	rs10408875
Chromosome Location	chr19:19503573-19503574
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:19499586..19501861-chr19:19503072..19505827,3	K562	blood:
2	chr19:19502977..19506681-chr19:19513070..19516267,3	MCF-7	breast:
3	chr19:19490798..19493427-chr19:19502651..19505000,2	K562	blood:
4	chr19:19502211..19504358-chr19:19514697..19518342,5	K562	blood:
5	chr19:19491673..19504307-chr19:19513999..19523684,33	K562	blood:
6	chr19:19495579..19499237-chr19:19499394..19505586,7	K562	blood:
7	chr19:19334594..19337055-chr19:19501477..19503749,2	K562	blood:
8	chr19:19503000..19505018-chr19:19505310..19507817,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000167491	Chromatin interaction
ENSG00000267234	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10408596	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10415849	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10424702	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11668386	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11672355	0.81[EUR][1000 genomes]
rs12052117	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28720066	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56241616	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56273306	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56397647	0.86[ASN][1000 genomes]
rs57009615	0.84[ASN][1000 genomes]
rs59148799	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73002960	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8182472	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv911303	chr19:19256870-19505087	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv911305	chr19:19303802-19663850	Genic enhancers Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv1056419	chr19:19421218-19510611	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:19497600-19515800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr19:19498000-19505400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr19:19498000-19505600	Weak transcription	Gastric	stomach
4	chr19:19498000-19506600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr19:19498000-19510400	Weak transcription	A549	lung
6	chr19:19498000-19510400	Weak transcription	NHDF-Ad	bronchial
7	chr19:19498000-19515600	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr19:19498200-19505800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr19:19498200-19510400	Weak transcription	Fetal Stomach	stomach
10	chr19:19498400-19513600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr19:19498800-19506800	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr19:19499400-19504200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr19:19499600-19504200	Weak transcription	Primary B cells from peripheral blood	blood
14	chr19:19499600-19505000	Enhancers	Monocytes-CD14+_RO01746	blood
15	chr19:19499600-19505600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr19:19499600-19507000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
17	chr19:19499600-19507400	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr19:19499800-19505400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr19:19499800-19505800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr19:19499800-19506800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
21	chr19:19499800-19510400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr19:19500200-19504400	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr19:19500200-19505600	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr19:19500200-19505600	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr19:19500200-19506400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
26	chr19:19500200-19510400	Weak transcription	Brain Hippocampus Middle	brain
27	chr19:19500400-19504200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr19:19500400-19504200	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr19:19500400-19505400	Weak transcription	Hela-S3	cervix
30	chr19:19500400-19505600	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr19:19500400-19505600	Weak transcription	NHLF	lung
32	chr19:19500400-19506800	Enhancers	Primary T cells from cord blood	blood
33	chr19:19500400-19509800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr19:19500400-19515400	Weak transcription	Fetal Heart	heart
35	chr19:19500600-19504400	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr19:19500600-19504400	Enhancers	K562	blood
37	chr19:19500600-19505400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr19:19500600-19505400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr19:19500600-19505600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr19:19500600-19510400	Weak transcription	Fetal Kidney	kidney
41	chr19:19500600-19515800	Weak transcription	Right Ventricle	heart
42	chr19:19500800-19503800	Weak transcription	Fetal Muscle Trunk	muscle
43	chr19:19501000-19505200	Weak transcription	Small Intestine	intestine
44	chr19:19501200-19504000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr19:19501200-19504200	Weak transcription	Fetal Lung	lung
46	chr19:19501200-19505000	Weak transcription	Placenta	Placenta
47	chr19:19501200-19514000	Weak transcription	Pancreas	Pancrea
48	chr19:19501400-19503800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr19:19501400-19504000	Weak transcription	Thymus	Thymus
50	chr19:19501400-19504200	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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