Variant report

Variant	rs59034876
Chromosome Location	chr6:26633046-26633047
allele	A/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	chr6:26632918-26633306	PANC-1	pancreas:	n/a	n/a
2	POLR2A	chr6:26632982-26633276	PANC-1	pancreas:	n/a	n/a
3	POLR2A	chr6:26633044-26633047	MCF-7	breast:	n/a	n/a
4	POLR2A	chr6:26632618-26633232	HepG2	liver:	n/a	n/a
5	POLR2A	chr6:26632937-26633082	SK-N-SH	brain:	n/a	n/a
6	POLR2A	chr6:26632345-26633336	K562	blood:	n/a	n/a
7	POLR2A	chr6:26632865-26633246	K562	blood:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ABT1-5	chr6:26630055-26634786	NONHSAT108301

Variant related genes	Relation type
VN1R14P	TF binding region

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs13978	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs57538609	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57768474	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58434342	0.88[ASN][1000 genomes]
rs6902081	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6910871	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6911476	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs73397148	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9295700	0.88[ASN][1000 genomes]
rs9461277	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9461285	0.88[ASN][1000 genomes]
rs9461291	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9467816	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467817	0.88[ASN][1000 genomes]
rs9467818	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467824	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467838	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]

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	nsv948921	chr6:26556890-27443957	Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	472 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26625400-26639200	Weak transcription	Brain Hippocampus Middle	brain
2	chr6:26629400-26639200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:26629600-26635400	Weak transcription	Fetal Intestine Small	intestine
4	chr6:26629800-26640000	Weak transcription	Left Ventricle	heart
5	chr6:26630400-26640000	Weak transcription	Aorta	Aorta
6	chr6:26630600-26633600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:26631200-26633400	Weak transcription	HSMM	muscle
8	chr6:26631200-26633600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:26631200-26634000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr6:26631400-26634600	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:26631400-26639000	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr6:26631800-26634200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:26631800-26634400	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr6:26631800-26634800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr6:26631800-26639200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr6:26631800-26640400	Weak transcription	Pancreas	Pancrea
17	chr6:26632000-26633800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr6:26632000-26633800	Weak transcription	Adipose Nuclei	Adipose
19	chr6:26632000-26640600	Weak transcription	Fetal Stomach	stomach
20	chr6:26632200-26633800	Weak transcription	Brain Angular Gyrus	brain
21	chr6:26632200-26633800	Weak transcription	HSMMtube	muscle
22	chr6:26632200-26634000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr6:26632200-26634000	Weak transcription	Brain Anterior Caudate	brain
24	chr6:26632200-26634000	Weak transcription	Fetal Brain Female	brain
25	chr6:26632200-26634000	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr6:26632200-26639000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr6:26632200-26639200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr6:26632200-26639200	Weak transcription	Rectal Smooth Muscle	rectum
29	chr6:26632400-26633800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr6:26632400-26634000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr6:26632400-26634600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr6:26632400-26639000	Weak transcription	Duodenum Mucosa	Duodenum
33	chr6:26632600-26633600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr6:26632600-26638200	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr6:26632600-26638800	Weak transcription	Primary T helper cells PMA-I stimulated	--
36	chr6:26632600-26638800	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr6:26632600-26639000	Weak transcription	Dnd41	blood
38	chr6:26632600-26640000	Weak transcription	Fetal Kidney	kidney
39	chr6:26632800-26634400	Weak transcription	Primary B cells from peripheral blood	blood
40	chr6:26632800-26634600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
41	chr6:26632800-26638400	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr6:26632800-26639000	Weak transcription	Brain Cingulate Gyrus	brain
43	chr6:26632800-26639200	Weak transcription	Psoas Muscle	Psoas
44	chr6:26632800-26640000	Weak transcription	Esophagus	oesophagus
45	chr6:26633000-26633200	ZNF genes & repeats	Gastric	stomach
46	chr6:26633000-26634400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr6:26633000-26639000	Weak transcription	HepG2	liver
48	chr6:26633000-26639200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr6:26633000-26639200	Weak transcription	Fetal Muscle Trunk	muscle
50	chr6:26633000-26639200	Weak transcription	Right Ventricle	heart

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