Variant report

Variant	rs58973977
Chromosome Location	chr6:114649448-114649449
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs12190227	0.86[AFR][1000 genomes]
rs12199428	0.89[AFR][1000 genomes]
rs56119733	0.89[EUR][1000 genomes]
rs56147035	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56171501	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58258587	0.87[AFR][1000 genomes]
rs58800329	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60434795	1.00[EUR][1000 genomes]
rs61094271	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6899884	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6900928	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6923441	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73544441	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73544443	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73544448	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73544451	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73544455	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73544456	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73544473	1.00[EUR][1000 genomes]
rs73544480	1.00[EUR][1000 genomes]
rs73546511	1.00[EUR][1000 genomes]
rs73546522	1.00[EUR][1000 genomes]
rs73546529	0.94[EUR][1000 genomes]
rs7755266	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7772400	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs785136	1.00[EUR][1000 genomes]
rs9689797	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

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	nsv1024062	chr6:114311029-114679557	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases
2	esv34434	chr6:114465305-115462799	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
3	nsv464024	chr6:114489321-114837181	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
4	nsv604544	chr6:114489321-114837181	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	esv3692910	chr6:114597419-115480580	Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
6	nsv528128	chr6:114597657-115471129	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
7	nsv818451	chr6:114597657-115471129	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:114637600-114649600	Weak transcription	Brain Substantia Nigra	brain
2	chr6:114637600-114652200	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr6:114640400-114651000	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr6:114643000-114649600	Weak transcription	Brain Hippocampus Middle	brain
5	chr6:114644400-114651600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:114645200-114649800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr6:114645400-114652400	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr6:114646200-114649800	Weak transcription	Brain Angular Gyrus	brain
9	chr6:114646600-114655400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr6:114647000-114651600	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr6:114647600-114652200	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr6:114647800-114652400	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr6:114648000-114649600	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr6:114648000-114651200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr6:114648400-114650800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr6:114648400-114651800	Enhancers	H1 Cell Line	embryonic stem cell
17	chr6:114648600-114650800	Enhancers	Brain Germinal Matrix	brain
18	chr6:114648800-114649600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr6:114649000-114650200	Enhancers	Brain Anterior Caudate	brain
20	chr6:114649200-114650600	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr6:114649400-114650000	Enhancers	Fetal Brain Male	brain

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