Variant report

Variant	rs6882539
Chromosome Location	chr5:16880120-16880121
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs10520845	0.86[CHB][hapmap]
rs16869212	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025225	chr5:16714512-17234866	Enhancers Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1015247	chr5:16748966-17133274	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription 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	14 gene(s)	inside rSNPs	diseases
3	esv2762500	chr5:16815489-16952565	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases
4	nsv880277	chr5:16829442-17316288	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv1034844	chr5:16854341-16903100	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	esv3485757	chr5:16856475-16966851	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
7	esv3485758	chr5:16856475-16966851	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:16865200-16884600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr5:16867400-16880600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr5:16867600-16880800	Weak transcription	Fetal Kidney	kidney
4	chr5:16867600-16883600	Weak transcription	Colonic Mucosa	Colon
5	chr5:16867600-16885800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr5:16867600-16889000	Weak transcription	Spleen	Spleen
7	chr5:16871200-16886000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr5:16872400-16880400	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr5:16873600-16886000	Weak transcription	Left Ventricle	heart
10	chr5:16874000-16880400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr5:16874000-16881000	Weak transcription	Liver	Liver
12	chr5:16874000-16881600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr5:16874000-16894600	Weak transcription	Esophagus	oesophagus
14	chr5:16874200-16880800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr5:16874200-16883600	Weak transcription	Lung	lung
16	chr5:16874400-16885400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr5:16874800-16880800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr5:16875200-16881000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr5:16875600-16881000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr5:16875600-16881800	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr5:16875600-16889000	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr5:16875800-16881600	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr5:16876000-16880600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr5:16876200-16880200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr5:16876200-16880600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr5:16876200-16880600	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr5:16876200-16881000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr5:16876200-16881400	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr5:16876800-16885200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr5:16877200-16880800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr5:16877200-16884200	Weak transcription	Fetal Muscle Trunk	muscle
32	chr5:16877400-16880200	Enhancers	Gastric	stomach
33	chr5:16877400-16881200	Enhancers	Duodenum Mucosa	Duodenum
34	chr5:16877400-16885600	Enhancers	Fetal Intestine Large	intestine
35	chr5:16877400-16888200	Weak transcription	HUVEC	blood vessel
36	chr5:16877400-16889000	Weak transcription	Fetal Stomach	stomach
37	chr5:16877600-16880800	Enhancers	A549	lung
38	chr5:16877600-16883400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr5:16877800-16880400	Weak transcription	HUES6 Cell Line	embryonic stem cell
40	chr5:16877800-16880800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr5:16877800-16880800	Weak transcription	NHEK	skin
42	chr5:16877800-16882000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr5:16877800-16882400	Enhancers	Fetal Intestine Small	intestine
44	chr5:16877800-16883400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr5:16877800-16883400	Weak transcription	Osteobl	bone
46	chr5:16877800-16884000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr5:16877800-16889000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr5:16878200-16880800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr5:16878200-16880800	Enhancers	Rectal Mucosa Donor 31	rectum
50	chr5:16878200-16880800	Weak transcription	NHLF	lung

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