Variant report

Variant	rs3805744
Chromosome Location	chr5:126146229-126146230
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr5:126145920-126146514	GM12878	blood:	n/a	n/a
2	POLR2A	chr5:126145092-126148371	K562	blood:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:126144524..126147044-chr5:126151207..126155375,3	MCF-7	breast:
2	chr5:126145493..126147146-chr5:126147847..126149410,2	MCF-7	breast:
3	chr5:126135601..126137322-chr5:126144015..126147273,3	K562	blood:
4	chr5:126112758..126116358-chr5:126145679..126148817,3	K562	blood:
5	chr5:126139495..126141394-chr5:126144830..126147381,2	K562	blood:

No data

Variant related genes	Relation type
LMNB1	TF binding region
ENSG00000113368	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11241908	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11241910	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11741648	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11748362	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11748369	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11748382	0.82[ASN][1000 genomes]
rs12514715	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13176550	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13181450	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1964723	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2036847	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2408776	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34740558	0.95[ASN][1000 genomes]
rs35091677	0.88[EUR][1000 genomes]
rs35156477	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35500127	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3805738	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3828699	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs57812062	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6595736	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6595738	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs67386870	0.81[ASN][1000 genomes]
rs6873056	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6873780	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6874037	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6894559	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7708419	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7709312	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[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	nsv949054	chr5:125918148-126254480	Enhancers Genic enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv534292	chr5:125993451-126259315	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer 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	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:126114600-126161600	Weak transcription	Ovary	ovary
2	chr5:126116600-126147800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr5:126125400-126146600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr5:126130400-126165800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr5:126132200-126161200	Weak transcription	Gastric	stomach
6	chr5:126135200-126147200	Weak transcription	Fetal Brain Male	brain
7	chr5:126136000-126175200	Strong transcription	Dnd41	blood
8	chr5:126136400-126162400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr5:126137600-126146800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr5:126137600-126154600	Weak transcription	Fetal Kidney	kidney
11	chr5:126137600-126166600	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr5:126137800-126146400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr5:126137800-126147400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr5:126139800-126148200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr5:126139800-126160600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr5:126139800-126175400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr5:126140000-126146600	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr5:126140000-126150600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr5:126140000-126162000	Strong transcription	HUES64 Cell Line	embryonic stem cell
20	chr5:126140000-126162200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
21	chr5:126140000-126175200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr5:126140000-126175400	Strong transcription	Fetal Thymus	thymus
23	chr5:126140200-126150600	Strong transcription	Thymus	Thymus
24	chr5:126140200-126161400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
25	chr5:126140200-126161800	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr5:126140200-126162600	Weak transcription	Colonic Mucosa	Colon
27	chr5:126140200-126163400	Weak transcription	Pancreas	Pancrea
28	chr5:126140400-126147200	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr5:126140400-126150000	Strong transcription	Fetal Muscle Leg	muscle
30	chr5:126140400-126150600	Strong transcription	Fetal Muscle Trunk	muscle
31	chr5:126140400-126161200	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr5:126140400-126161800	Weak transcription	Placenta	Placenta
33	chr5:126140400-126162200	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr5:126140600-126161600	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr5:126140800-126161400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr5:126141000-126146400	Weak transcription	NH-A	brain
37	chr5:126141000-126146800	Weak transcription	NHEK	skin
38	chr5:126141000-126147600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr5:126141000-126159200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr5:126141000-126177400	Weak transcription	Small Intestine	intestine
41	chr5:126141200-126146600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr5:126141200-126147600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr5:126141200-126161400	Weak transcription	Lung	lung
44	chr5:126141200-126181800	Weak transcription	Rectal Smooth Muscle	rectum
45	chr5:126141400-126146600	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr5:126141400-126147600	Weak transcription	Brain Angular Gyrus	brain
47	chr5:126141400-126150400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr5:126141400-126174200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr5:126141600-126146800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr5:126141600-126150600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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