Variant report

Variant	rs509741
Chromosome Location	chr5:80311983-80311984
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:80309029..80312637-chr5:80313535..80317420,3	K562	blood:

Variant related genes	Relation type
ENSG00000113319	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs481785	0.87[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs483970	0.83[CHB][hapmap]
rs497522	0.86[ASN][1000 genomes]
rs499090	0.87[CHB][hapmap];0.89[CHD][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs501544	0.87[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs516660	0.88[ASN][1000 genomes]
rs527116	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs527506	0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs533308	0.86[CHB][hapmap];0.89[CHD][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs538957	0.87[CHB][hapmap];0.89[CHD][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs539809	0.83[CHB][hapmap]
rs546746	0.81[ASN][1000 genomes]
rs555979	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs564459	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs565476	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.89[MEX][hapmap];0.98[TSI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs565834	0.84[ASN][1000 genomes]
rs567367	0.86[CHB][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs568299	0.82[ASN][1000 genomes]
rs569262	0.83[CHB][hapmap]
rs570858	0.83[CHB][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	nsv1024844	chr5:79862428-80860430	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv598747	chr5:79996632-80322712	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1021784	chr5:80023679-80313586	ZNF genes & repeats Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv537787	chr5:80023679-80313586	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv830358	chr5:80197105-80358920	Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv830360	chr5:80283278-80446040	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv4897	chr5:80284196-80330223	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:80300000-80313000	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr5:80300400-80312800	Weak transcription	Brain Hippocampus Middle	brain
3	chr5:80300400-80316600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr5:80300400-80318400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr5:80303000-80312800	Weak transcription	Brain Angular Gyrus	brain
6	chr5:80303000-80318200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr5:80303800-80314400	Weak transcription	HepG2	liver
8	chr5:80305000-80315000	Weak transcription	Left Ventricle	heart
9	chr5:80305200-80318200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr5:80305800-80312800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr5:80307400-80312800	Weak transcription	Fetal Lung	lung
12	chr5:80309400-80312800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr5:80309800-80317000	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr5:80311000-80312800	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr5:80311000-80312800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr5:80311000-80312800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr5:80311000-80317400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr5:80311200-80312200	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr5:80311600-80312200	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr5:80311600-80312200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr5:80311600-80312200	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr5:80311600-80312200	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr5:80311600-80313800	Enhancers	Primary T cells from cord blood	blood
24	chr5:80311600-80315000	Enhancers	Primary T helper naive cells from peripheral blood	blood
25	chr5:80311600-80323800	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr5:80311600-80325400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
27	chr5:80311800-80312000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
28	chr5:80311800-80313000	Enhancers	iPS-20b Cell Line	embryonic stem cell
29	chr5:80311800-80314400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
30	chr5:80311800-80314400	Enhancers	Primary T killer memory cells from peripheral blood	blood

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