Variant report

Variant	rs2229240
Chromosome Location	chr2:87017575-87017576
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs13411320	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13423040	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2229239	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2367369	1.00[EUR][1000 genomes]
rs2367370	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2886957	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36227194	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4319929	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56003000	0.87[EUR][1000 genomes]
rs56061957	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62146062	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62146064	1.00[EUR][1000 genomes]
rs62146076	0.87[EUR][1000 genomes]
rs62146077	0.87[EUR][1000 genomes]
rs62146081	0.87[EUR][1000 genomes]
rs7563485	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532724	chr2:86622295-87086407	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv10063	chr2:86940988-87084360	Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1002420	chr2:86948835-87172715	Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	nsv874472	chr2:86961252-87071474	Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv1008817	chr2:86970406-87172715	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	esv14382	chr2:86972214-87174121	Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
7	nsv997982	chr2:86972834-87105864	Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv1007746	chr2:86972834-87172715	Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
9	nsv458585	chr2:86974318-87108211	Flanking Active TSS Genic enhancers Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
10	nsv582373	chr2:86974318-87108211	Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
11	nsv1007307	chr2:86974563-87055214	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
12	nsv535809	chr2:86974563-87055214	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
13	nsv1003748	chr2:86975514-87032318	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Genic enhancers Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
14	nsv535810	chr2:86975514-87032318	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
15	nsv1004572	chr2:86975514-87082883	Bivalent/Poised TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
16	nsv535811	chr2:86975514-87082883	Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:87012000-87017600	Transcr. at gene 5' and 3'	Thymus	Thymus
2	chr2:87014800-87018200	Bivalent/Poised TSS	Primary T cells from cord blood	blood
3	chr2:87015000-87018400	Active TSS	Primary T killer memory cells from peripheral blood	blood
4	chr2:87015600-87018800	Bivalent Enhancer	Fetal Brain Male	brain
5	chr2:87016000-87017600	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr2:87016000-87017800	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
7	chr2:87016000-87018000	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
8	chr2:87016000-87018200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
9	chr2:87016000-87018200	Active TSS	Primary T killer naive cells fromperipheralblood	blood
10	chr2:87016000-87018400	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
11	chr2:87016000-87018600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
12	chr2:87016000-87018600	Flanking Bivalent TSS/Enh	Esophagus	oesophagus
13	chr2:87016000-87019000	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
14	chr2:87016200-87017600	Bivalent Enhancer	HMEC	breast
15	chr2:87016200-87017800	Bivalent Enhancer	Left Ventricle	heart
16	chr2:87016200-87018000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
17	chr2:87016200-87018200	Bivalent Enhancer	Fetal Intestine Small	intestine
18	chr2:87016200-87018600	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
19	chr2:87016200-87018600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
20	chr2:87016200-87018600	Bivalent Enhancer	Fetal Intestine Large	intestine
21	chr2:87016400-87017800	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
22	chr2:87016400-87018400	Bivalent Enhancer	Fetal Heart	heart
23	chr2:87016400-87018400	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
24	chr2:87016600-87017600	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
25	chr2:87016600-87017600	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr2:87016600-87017600	Flanking Bivalent TSS/Enh	Spleen	Spleen
27	chr2:87016600-87017800	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood
28	chr2:87016600-87017800	Bivalent Enhancer	Brain Substantia Nigra	brain
29	chr2:87016600-87018000	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
30	chr2:87016600-87018000	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr2:87016600-87018000	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
32	chr2:87016600-87018200	Bivalent Enhancer	Fetal Stomach	stomach
33	chr2:87016800-87018000	Bivalent/Poised TSS	Pancreatic Islets	Pancreatic Islet
34	chr2:87016800-87018200	Enhancers	Gastric	stomach
35	chr2:87016800-87019000	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
36	chr2:87017000-87017600	Bivalent/Poised TSS	Primary T helper naive cells from peripheral blood	blood
37	chr2:87017000-87017600	Flanking Bivalent TSS/Enh	Duodenum Mucosa	Duodenum
38	chr2:87017000-87017600	Flanking Bivalent TSS/Enh	Fetal Thymus	thymus
39	chr2:87017000-87017600	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
40	chr2:87017000-87017600	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
41	chr2:87017000-87017600	Flanking Bivalent TSS/Enh	A549	lung
42	chr2:87017000-87017800	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
43	chr2:87017000-87018200	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
44	chr2:87017000-87018200	Bivalent Enhancer	Fetal Lung	lung
45	chr2:87017000-87018200	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
46	chr2:87017200-87017600	Flanking Bivalent TSS/Enh	Primary B cells from cord blood	blood
47	chr2:87017200-87017600	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr2:87017200-87017600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr2:87017200-87017600	Flanking Bivalent TSS/Enh	Duodenum Smooth Muscle	Duodenum
50	chr2:87017200-87017600	Bivalent/Poised TSS	Rectal Mucosa Donor 31	rectum

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