Variant report

Variant	rs6879038
Chromosome Location	chr5:107550636-107550637
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs2416527	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28513512	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55825519	1.00[AMR][1000 genomes]
rs56024626	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56902538	0.83[AMR][1000 genomes]
rs56929525	0.83[AMR][1000 genomes]
rs57269490	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57354704	1.00[AMR][1000 genomes]
rs57911118	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58040806	0.83[AMR][1000 genomes]
rs58537065	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58899755	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59260333	1.00[AMR][1000 genomes]
rs59704928	0.83[AMR][1000 genomes]
rs60212774	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60381359	0.83[AMR][1000 genomes]
rs61096927	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61201760	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61614616	1.00[AMR][1000 genomes]
rs6861104	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6867893	0.83[AMR][1000 genomes]
rs6879616	0.83[AMR][1000 genomes]
rs6883115	0.83[AMR][1000 genomes]
rs73778679	0.83[AMR][1000 genomes]
rs73778680	0.83[AMR][1000 genomes]
rs73778683	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73778685	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73778688	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73778696	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73778698	0.83[AMR][1000 genomes]
rs73781305	0.83[AMR][1000 genomes]
rs73781306	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73781307	0.83[AMR][1000 genomes]
rs73781308	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73781309	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73781312	0.83[AMR][1000 genomes]
rs73781321	1.00[AMR][1000 genomes]
rs73781322	1.00[AMR][1000 genomes]
rs73781323	1.00[AMR][1000 genomes]
rs73781324	1.00[AMR][1000 genomes]
rs73781326	0.83[AMR][1000 genomes]
rs73781327	1.00[AMR][1000 genomes]
rs73781330	1.00[AMR][1000 genomes]
rs73781331	1.00[AMR][1000 genomes]
rs73781332	0.83[AMR][1000 genomes]
rs73781335	0.83[AMR][1000 genomes]
rs73781336	0.83[AMR][1000 genomes]
rs73781339	1.00[AMR][1000 genomes]
rs73781340	1.00[AMR][1000 genomes]
rs73781344	1.00[AMR][1000 genomes]
rs7706235	1.00[AMR][1000 genomes]
rs7709699	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7713871	0.83[AMR][1000 genomes]
rs7721632	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7722719	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7722938	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7725340	0.83[AMR][1000 genomes]
rs7726195	0.83[AMR][1000 genomes]
rs7728430	0.83[AMR][1000 genomes]
rs7737425	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs962681	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534281	chr5:107357579-107674981	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv830441	chr5:107450392-107614557	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv882683	chr5:107476501-107769095	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	nsv882684	chr5:107521677-107695558	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv830442	chr5:107539150-107697020	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107516200-107584800	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr5:107516800-107551400	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr5:107517000-107571800	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr5:107526000-107550800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr5:107539400-107551000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr5:107546200-107553200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr5:107546600-107590800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr5:107547000-107552400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr5:107547000-107577200	Weak transcription	Fetal Intestine Large	intestine
10	chr5:107548800-107556000	Weak transcription	Left Ventricle	heart
11	chr5:107549000-107552400	Weak transcription	Fetal Heart	heart
12	chr5:107549000-107552400	Weak transcription	NH-A	brain
13	chr5:107549200-107551600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr5:107549200-107578000	Weak transcription	Pancreas	Pancrea
15	chr5:107549400-107552400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr5:107549400-107552600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr5:107549400-107552600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr5:107549400-107557600	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr5:107549400-107561200	Weak transcription	Fetal Intestine Small	intestine
20	chr5:107550000-107552600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr5:107550200-107551600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr5:107550200-107561400	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr5:107550400-107551000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
24	chr5:107550400-107552000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr5:107550600-107550800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr5:107550600-107551000	ZNF genes & repeats	Fetal Lung	lung
27	chr5:107550600-107551200	ZNF genes & repeats	Primary B cells from cord blood	blood
28	chr5:107550600-107551400	ZNF genes & repeats	Liver	Liver
29	chr5:107550600-107551800	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
30	chr5:107550600-107552000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr5:107550600-107552600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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