Variant report

Variant	rs899337
Chromosome Location	chr17:20898638-20898639
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	FOSL2	chr17:20898271-20898764	HepG2	liver:	n/a	chr17:20898443-20898451 chr17:20898321-20898330
2	POLR2A	chr17:20898383-20898860	H1-neurons	neurons:	n/a	n/a
3	POLR2A	chr17:20897542-20903962	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:20895463..20898047-chr17:20898321..20900254,2	K562	blood:
2	chr17:20895064..20900549-chr17:20901410..20906180,6	K562	blood:

Variant related genes	Relation type
ENSG00000263986	TF binding region
ENSG00000263986	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 12 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1045162	0.90[AMR][1000 genomes]
rs1127814	0.90[AMR][1000 genomes]
rs12051606	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12600703	0.82[AMR][1000 genomes]
rs12601292	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12602058	0.94[CEU][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1542552	0.88[CEU][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17770614	0.90[AMR][1000 genomes]
rs2054464	0.88[AMR][1000 genomes]
rs2127095	0.87[AMR][1000 genomes]
rs2364326	0.87[AMR][1000 genomes]
rs2886105	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4445951	0.90[AMR][1000 genomes]
rs4985811	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4985814	0.92[AMR][1000 genomes]
rs4985815	0.92[AMR][1000 genomes]
rs4985816	0.90[AMR][1000 genomes]
rs4985966	0.87[AMR][1000 genomes]
rs4985968	0.84[AMR][1000 genomes]
rs4985969	0.87[AMR][1000 genomes]
rs4985970	0.87[AMR][1000 genomes]
rs4985971	0.83[AMR][1000 genomes]
rs4985975	0.82[AMR][1000 genomes]
rs56323013	0.92[AMR][1000 genomes]
rs58235085	0.87[AMR][1000 genomes]
rs59543297	0.87[AMR][1000 genomes]
rs59713572	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs719093	0.90[AMR][1000 genomes]
rs880653	0.88[AMR][1000 genomes];0.82[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	esv2751619	chr17:20462908-20914156	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv949097	chr17:20801739-21406355	Genic enhancers Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
3	nsv529759	chr17:20839079-21529632	Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
4	nsv827917	chr17:20896100-20961777	Flanking Active TSS Enhancers Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:12)

SNP	Gene	Cis/trans	Tissue	Source
rs899337	RP11-344E13.3	cis	Stomach	GTEx
rs899337	RP11-344E13.3	cis	Esophagus Muscularis	GTEx
rs899337	RP11-344E13.3	cis	Thyroid	GTEx
rs899337	RP11-344E13.3	cis	Heart Left Ventricle	GTEx
rs899337	RP11-344E13.3	cis	Esophagus Mucosa	GTEx
rs899337	RP11-344E13.3	cis	Whole Blood	GTEx
rs899337	RP11-344E13.3	cis	Nerve Tibial	GTEx
rs899337	RP11-344E13.3	cis	Adipose Subcutaneous	GTEx
rs899337	RP11-344E13.3	cis	lung	GTEx
rs899337	RP11-344E13.3	cis	Muscle Skeletal	GTEx
rs899337	RP11-344E13.3	cis	Skin Sun Exposed Lower leg	GTEx
rs899337	RP11-344E13.3	cis	Artery Tibial	GTEx

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:20893000-20901600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr17:20893800-20901200	Weak transcription	Right Atrium	heart
3	chr17:20894800-20899000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr17:20896400-20900400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr17:20896400-20901400	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr17:20896400-20901600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr17:20896400-20902800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr17:20896600-20901800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr17:20896600-20901800	Weak transcription	HUVEC	blood vessel
10	chr17:20896600-20902000	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr17:20896600-20906800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr17:20896800-20899400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr17:20896800-20899400	Weak transcription	Right Ventricle	heart
14	chr17:20896800-20899600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr17:20896800-20900000	Weak transcription	Adipose Nuclei	Adipose
16	chr17:20896800-20900000	Weak transcription	Fetal Muscle Leg	muscle
17	chr17:20896800-20900600	Weak transcription	Esophagus	oesophagus
18	chr17:20896800-20900600	Weak transcription	Fetal Intestine Small	intestine
19	chr17:20896800-20900600	Weak transcription	Left Ventricle	heart
20	chr17:20896800-20900800	Weak transcription	Brain Germinal Matrix	brain
21	chr17:20896800-20900800	Weak transcription	Fetal Brain Female	brain
22	chr17:20896800-20901000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr17:20896800-20901000	Weak transcription	Ovary	ovary
24	chr17:20896800-20901400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr17:20896800-20901400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr17:20896800-20901400	Weak transcription	Fetal Lung	lung
27	chr17:20896800-20901600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr17:20896800-20901600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr17:20896800-20901600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr17:20896800-20901600	Weak transcription	HSMM	muscle
31	chr17:20896800-20901800	Weak transcription	Primary T helper cells fromperipheralblood	blood
32	chr17:20896800-20901800	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr17:20896800-20901800	Weak transcription	NHDF-Ad	bronchial
34	chr17:20896800-20902200	Weak transcription	Primary B cells from peripheral blood	blood
35	chr17:20896800-20902200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr17:20896800-20902200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr17:20896800-20902200	Weak transcription	Fetal Thymus	thymus
38	chr17:20896800-20902400	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr17:20896800-20902600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr17:20896800-20902600	Weak transcription	Colonic Mucosa	Colon
41	chr17:20896800-20902600	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr17:20896800-20902600	Weak transcription	NHEK	skin
43	chr17:20896800-20904200	Weak transcription	Primary T cells from cord blood	blood
44	chr17:20896800-20904800	Weak transcription	Fetal Kidney	kidney
45	chr17:20896800-20905200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr17:20897000-20899400	Weak transcription	Fetal Muscle Trunk	muscle
47	chr17:20897000-20899600	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr17:20897000-20900400	Weak transcription	Brain Angular Gyrus	brain
49	chr17:20897000-20900600	Weak transcription	Colon Smooth Muscle	Colon
50	chr17:20897000-20901000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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