Variant report

Variant	rs59307279
Chromosome Location	chr5:95271478-95271479
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:95269858..95271491-chr5:95279043..95281999,2	K562	blood:
2	chr5:95270893..95273620-chr5:95274883..95277276,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10052503	0.93[EUR][1000 genomes]
rs10073752	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10515232	0.91[EUR][1000 genomes]
rs11738945	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11742959	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12055262	0.96[EUR][1000 genomes]
rs17085333	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1862313	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2112566	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2161318	0.93[EUR][1000 genomes]
rs2546199	0.93[EUR][1000 genomes]
rs3734131	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3756703	0.86[EUR][1000 genomes]
rs3777162	0.92[EUR][1000 genomes]
rs3777163	0.92[EUR][1000 genomes]
rs3777165	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3777166	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3777168	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3777171	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3777173	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3777175	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3777178	0.96[EUR][1000 genomes]
rs3777179	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3777207	0.84[AFR][1000 genomes]
rs3822750	0.86[EUR][1000 genomes]
rs55841351	0.92[EUR][1000 genomes]
rs56002885	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57243277	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57595413	0.92[EUR][1000 genomes]
rs57949227	0.84[AFR][1000 genomes]
rs58921760	0.95[EUR][1000 genomes]
rs6556894	0.93[EUR][1000 genomes]
rs6861531	0.96[EUR][1000 genomes]
rs6877821	0.93[EUR][1000 genomes]
rs6881355	0.96[EUR][1000 genomes]
rs6881872	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6883880	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6894651	0.92[EUR][1000 genomes]
rs6897997	0.94[EUR][1000 genomes]
rs6898371	0.93[EUR][1000 genomes]
rs6898399	0.93[EUR][1000 genomes]
rs72656689	0.95[EUR][1000 genomes]
rs7700895	0.96[EUR][1000 genomes]
rs7705279	0.91[EUR][1000 genomes]
rs7705720	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7724599	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015180	chr5:95134357-95286446	Strong transcription Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1019566	chr5:95180352-95300677	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	esv2758003	chr5:95231706-95540433	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
4	esv2759355	chr5:95231706-95540433	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs59307279	ELL2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:95236400-95276600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:95238200-95282000	Weak transcription	HUVEC	blood vessel
3	chr5:95243400-95278800	Weak transcription	Lung	lung
4	chr5:95243600-95274200	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr5:95249800-95271600	Weak transcription	NH-A	brain
6	chr5:95252200-95272400	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr5:95253800-95272400	Weak transcription	Placenta	Placenta
8	chr5:95257400-95276600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr5:95259400-95273400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr5:95259400-95274600	Weak transcription	Psoas Muscle	Psoas
11	chr5:95260000-95272200	Weak transcription	Left Ventricle	heart
12	chr5:95260000-95280600	Weak transcription	Esophagus	oesophagus
13	chr5:95260800-95273400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr5:95260800-95295200	Weak transcription	Primary T cells from cord blood	blood
15	chr5:95261800-95271600	Weak transcription	Adipose Nuclei	Adipose
16	chr5:95262200-95272400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr5:95262200-95295400	Weak transcription	Primary hematopoietic stem cells	blood
18	chr5:95263800-95278400	Weak transcription	Colonic Mucosa	Colon
19	chr5:95264200-95271600	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr5:95264800-95272400	Weak transcription	Stomach Mucosa	stomach
21	chr5:95264800-95275200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr5:95264800-95276000	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr5:95264800-95279800	Weak transcription	Primary neutrophils fromperipheralblood	blood
24	chr5:95264800-95285600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr5:95264800-95293800	Weak transcription	Primary B cells from peripheral blood	blood
26	chr5:95265000-95272200	Weak transcription	Gastric	stomach
27	chr5:95265000-95272200	Weak transcription	Pancreas	Pancrea
28	chr5:95265000-95285600	Weak transcription	Duodenum Mucosa	Duodenum
29	chr5:95265400-95281800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr5:95266600-95274400	Weak transcription	NHLF	lung
31	chr5:95267000-95272600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr5:95267000-95277000	Weak transcription	Fetal Thymus	thymus
33	chr5:95267200-95280200	Weak transcription	Aorta	Aorta
34	chr5:95267400-95280000	Weak transcription	A549	lung
35	chr5:95267600-95274800	Weak transcription	NHDF-Ad	bronchial
36	chr5:95268400-95274600	Weak transcription	Brain Anterior Caudate	brain
37	chr5:95269000-95272200	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr5:95269600-95273000	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr5:95269800-95275000	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr5:95270000-95272200	Strong transcription	HSMM	muscle
41	chr5:95270000-95274200	Genic enhancers	Osteobl	bone
42	chr5:95270000-95283200	Genic enhancers	Muscle Satellite Cultured Cells	--
43	chr5:95270200-95271600	Weak transcription	Brain Cingulate Gyrus	brain
44	chr5:95270200-95273600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr5:95270400-95272200	Weak transcription	HSMMtube	muscle
46	chr5:95270400-95272400	Weak transcription	Brain Hippocampus Middle	brain
47	chr5:95270400-95272600	Weak transcription	Brain Substantia Nigra	brain
48	chr5:95270400-95276600	Weak transcription	Ovary	ovary
49	chr5:95270400-95276600	Weak transcription	Small Intestine	intestine
50	chr5:95270400-95277000	Weak transcription	Fetal Intestine Large	intestine

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