Variant report

Variant	rs17023212
Chromosome Location	chr2:39225870-39225871
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1059313	0.87[EUR][1000 genomes]
rs1454224	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17023184	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17023202	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34380388	1.00[CEU][hapmap]
rs61047910	0.87[EUR][1000 genomes]
rs61601281	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs72916863	0.91[AMR][1000 genomes]
rs72916887	0.95[AFR][1000 genomes]
rs72916894	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72916897	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72916899	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72916902	0.81[AMR][1000 genomes]
rs7568218	1.00[CEU][hapmap]
rs9678988	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873884	chr2:39154463-39332093	Genic enhancers Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	esv2755359	chr2:39169049-39417849	Strong transcription Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv873885	chr2:39200198-39573521	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer 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:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39200800-39227800	Weak transcription	Fetal Heart	heart
2	chr2:39202400-39228800	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr2:39205800-39242600	Weak transcription	Psoas Muscle	Psoas
4	chr2:39206000-39235800	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr2:39210000-39232000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr2:39210400-39233200	Strong transcription	Rectal Mucosa Donor 29	rectum
7	chr2:39210400-39241600	Strong transcription	Adipose Nuclei	Adipose
8	chr2:39210400-39242600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr2:39210600-39229400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr2:39210600-39242400	Strong transcription	Primary T helper cells fromperipheralblood	blood
11	chr2:39210800-39230200	Strong transcription	Dnd41	blood
12	chr2:39211000-39247600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr2:39211200-39228600	Strong transcription	HepG2	liver
14	chr2:39211400-39237800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr2:39211600-39242000	Weak transcription	Stomach Mucosa	stomach
16	chr2:39211800-39231200	Strong transcription	Rectal Mucosa Donor 31	rectum
17	chr2:39211800-39239600	Strong transcription	Fetal Intestine Large	intestine
18	chr2:39213400-39226400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr2:39213400-39226800	Weak transcription	Aorta	Aorta
20	chr2:39213400-39228000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr2:39213400-39228800	Weak transcription	Brain Angular Gyrus	brain
22	chr2:39213400-39234400	Weak transcription	Gastric	stomach
23	chr2:39213400-39234400	Weak transcription	NHEK	skin
24	chr2:39213400-39242200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr2:39213400-39242600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr2:39213400-39251200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr2:39213400-39259800	Weak transcription	Right Ventricle	heart
28	chr2:39213800-39226200	Weak transcription	K562	blood
29	chr2:39213800-39228200	Weak transcription	Fetal Intestine Small	intestine
30	chr2:39213800-39235000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr2:39213800-39235000	Weak transcription	Small Intestine	intestine
32	chr2:39213800-39308000	Weak transcription	Pancreas	Pancrea
33	chr2:39214200-39235400	Weak transcription	Hela-S3	cervix
34	chr2:39217400-39229000	Strong transcription	Liver	Liver
35	chr2:39217400-39241800	Strong transcription	Primary T cells fromperipheralblood	blood
36	chr2:39217600-39230200	Strong transcription	Primary T cells from cord blood	blood
37	chr2:39217600-39231200	Strong transcription	Primary T helper cells PMA-I stimulated	--
38	chr2:39217600-39234200	Strong transcription	Primary B cells from peripheral blood	blood
39	chr2:39217600-39242400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr2:39217600-39244200	Strong transcription	Primary B cells from cord blood	blood
41	chr2:39218800-39241200	Strong transcription	Primary neutrophils fromperipheralblood	blood
42	chr2:39219000-39259200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr2:39219200-39244000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr2:39219400-39226400	Weak transcription	Esophagus	oesophagus
45	chr2:39219400-39226400	Weak transcription	Lung	lung
46	chr2:39219400-39228200	Weak transcription	Ovary	ovary
47	chr2:39219400-39242600	Weak transcription	Brain Substantia Nigra	brain
48	chr2:39220400-39233000	Strong transcription	Duodenum Smooth Muscle	Duodenum
49	chr2:39220600-39237000	Strong transcription	Fetal Thymus	thymus
50	chr2:39221000-39241200	Strong transcription	Breast Myoepithelial Primary Cells	Breast

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