Variant report

Variant	rs10425377
Chromosome Location	chr19:51523002-51523003
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	POLR2A	chr19:51521912-51523512	HCT-116	colon:	n/a	n/a
2	BCL3	chr19:51522896-51523535	A549	lung:	n/a	n/a
3	POLR2A	chr19:51521885-51523853	HCT-116	colon:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:51517770..51520731-chr19:51521022..51523368,3	MCF-7	breast:
2	chr19:51306795..51309015-chr19:51522024..51524887,2	K562	blood:

Variant related genes	Relation type
KLK10	TF binding region
ENSG00000129451	Chromatin interaction
ENSG00000167747	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10426	0.88[EUR][1000 genomes]
rs35125447	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56035820	0.95[EUR][1000 genomes]
rs62115757	0.99[EUR][1000 genomes]
rs6509510	0.89[CHB][hapmap]
rs7259651	0.81[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv912291	chr19:51505725-51537682	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:51520000-51523400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
2	chr19:51520200-51523400	Active TSS	Ovary	ovary
3	chr19:51520400-51523600	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
4	chr19:51520800-51523400	Active TSS	H9 Cell Line	embryonic stem cell
5	chr19:51521000-51523200	Active TSS	Esophagus	oesophagus
6	chr19:51522000-51523400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
7	chr19:51522000-51523400	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
8	chr19:51522000-51523600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
9	chr19:51522000-51524400	Bivalent Enhancer	Fetal Stomach	stomach
10	chr19:51522200-51523200	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
11	chr19:51522200-51523800	Bivalent Enhancer	Placenta	Placenta
12	chr19:51522200-51523800	Enhancers	Lung	lung
13	chr19:51522400-51523200	Bivalent Enhancer	Duodenum Smooth Muscle	Duodenum
14	chr19:51522400-51523200	Bivalent Enhancer	Stomach Mucosa	stomach
15	chr19:51522400-51523200	Bivalent Enhancer	Spleen	Spleen
16	chr19:51522400-51523400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
17	chr19:51522400-51523400	Flanking Active TSS	HMEC	breast
18	chr19:51522400-51523400	Flanking Active TSS	NHEK	skin
19	chr19:51522400-51523600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr19:51522400-51524000	Enhancers	Brain Substantia Nigra	brain
21	chr19:51522600-51523400	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
22	chr19:51522600-51523600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr19:51522600-51523800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
24	chr19:51522600-51525800	Weak transcription	Gastric	stomach
25	chr19:51522800-51523200	Enhancers	Brain Angular Gyrus	brain
26	chr19:51522800-51523200	Bivalent Enhancer	Brain Dorsolateral Prefrontal Cortex	brain
27	chr19:51522800-51523400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr19:51522800-51523400	Bivalent Enhancer	Adipose Nuclei	Adipose
29	chr19:51522800-51523400	Bivalent Enhancer	Brain Hippocampus Middle	brain
30	chr19:51522800-51523400	Bivalent Enhancer	Colonic Mucosa	Colon
31	chr19:51522800-51523400	Enhancers	Right Atrium	heart
32	chr19:51522800-51523400	Bivalent Enhancer	A549	lung
33	chr19:51522800-51523800	Active TSS	Breast Myoepithelial Primary Cells	Breast
34	chr19:51522800-51523800	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
35	chr19:51523000-51523200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr19:51523000-51523400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
37	chr19:51523000-51523400	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
38	chr19:51523000-51523400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr19:51523000-51523400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr19:51523000-51523400	Weak transcription	Pancreas	Pancrea
41	chr19:51523000-51523600	Enhancers	Right Ventricle	heart
42	chr19:51523000-51523800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
43	chr19:51523000-51524200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
44	chr19:51523000-51524400	Enhancers	Brain Inferior Temporal Lobe	brain
45	chr19:51523000-51524600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr19:51523000-51524800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr19:51523000-51524800	Enhancers	Brain Anterior Caudate	brain

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