Variant report

Variant	rs16828060
Chromosome Location	chr2:148708879-148708880
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs16828028	0.92[AFR][1000 genomes]
rs16828031	0.92[AFR][1000 genomes]
rs17225381	1.00[AFR][1000 genomes]
rs17232008	0.92[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875275	chr2:148166428-148711242	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv916286	chr2:148438001-148977722	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv529388	chr2:148471340-148934846	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	esv3392562	chr2:148476961-148843061	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv1009602	chr2:148668195-148844240	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv535967	chr2:148668195-148844240	Weak transcription Flanking Active TSS Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
7	nsv1000246	chr2:148669162-148780280	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
8	nsv535968	chr2:148669162-148780280	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
9	nsv535969	chr2:148677122-148715921	Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
10	nsv1002358	chr2:148703807-148942372	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	nsv1004169	chr2:148705700-148811850	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
12	nsv535970	chr2:148705700-148811850	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:148637200-148752600	Weak transcription	Small Intestine	intestine
2	chr2:148647200-148719600	Weak transcription	Pancreas	Pancrea
3	chr2:148650200-148719600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr2:148653200-148719600	Weak transcription	Esophagus	oesophagus
5	chr2:148658800-148741600	Weak transcription	Aorta	Aorta
6	chr2:148659600-148719800	Weak transcription	Gastric	stomach
7	chr2:148661600-148718200	Weak transcription	Fetal Intestine Small	intestine
8	chr2:148664600-148721200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr2:148671800-148719600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr2:148676200-148722400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr2:148678000-148718200	Weak transcription	Right Ventricle	heart
12	chr2:148679000-148718800	Weak transcription	Fetal Stomach	stomach
13	chr2:148679600-148737200	Weak transcription	Hela-S3	cervix
14	chr2:148681000-148729600	Weak transcription	NHDF-Ad	bronchial
15	chr2:148683000-148725200	Weak transcription	Fetal Heart	heart
16	chr2:148688200-148719800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr2:148688200-148728600	Weak transcription	NH-A	brain
18	chr2:148688800-148719600	Weak transcription	Thymus	Thymus
19	chr2:148691000-148734600	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr2:148692000-148720200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr2:148692400-148713400	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr2:148692800-148719400	Weak transcription	HSMMtube	muscle
23	chr2:148693000-148712600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr2:148693400-148715600	Weak transcription	NHLF	lung
25	chr2:148693400-148722000	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr2:148693800-148724200	Weak transcription	Brain Hippocampus Middle	brain
27	chr2:148694000-148719600	Weak transcription	Fetal Brain Female	brain
28	chr2:148694000-148721000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr2:148694000-148725400	Weak transcription	Brain Anterior Caudate	brain
30	chr2:148694000-148731400	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr2:148694200-148777400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr2:148694400-148720600	Weak transcription	Ovary	ovary
33	chr2:148694400-148725400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr2:148694400-148738400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr2:148694400-148741000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr2:148694400-148741200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr2:148694600-148720400	Weak transcription	Lung	lung
38	chr2:148694600-148731600	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr2:148695000-148709200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr2:148695000-148746800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr2:148696600-148721400	Weak transcription	Brain Cingulate Gyrus	brain
42	chr2:148697400-148711800	Weak transcription	A549	lung
43	chr2:148697400-148713000	Weak transcription	Brain Substantia Nigra	brain
44	chr2:148698000-148734000	Weak transcription	Brain Angular Gyrus	brain
45	chr2:148701000-148728200	Weak transcription	Osteobl	bone
46	chr2:148701000-148730200	Weak transcription	Placenta	Placenta
47	chr2:148703000-148710200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr2:148703200-148709400	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr2:148703200-148709600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr2:148703200-148718400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

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