Variant report

Variant	rs9400989
Chromosome Location	chr6:117529820-117529821
allele	C/T
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:47)

rs_ID	r²[population]
rs1013679	1.00[AMR][1000 genomes]
rs10484307	1.00[AMR][1000 genomes]
rs1084690	0.87[AMR][1000 genomes]
rs17078890	0.87[AMR][1000 genomes]
rs17078912	1.00[AMR][1000 genomes]
rs17078915	1.00[AMR][1000 genomes]
rs472149	0.87[AMR][1000 genomes]
rs474344	0.87[AMR][1000 genomes]
rs475755	0.87[AMR][1000 genomes]
rs476918	0.87[AMR][1000 genomes]
rs480564	0.87[AMR][1000 genomes]
rs488678	0.87[AMR][1000 genomes]
rs490789	0.87[AMR][1000 genomes]
rs4945575	0.87[AMR][1000 genomes]
rs4946222	0.87[AMR][1000 genomes]
rs4946223	0.87[AMR][1000 genomes]
rs4946224	0.87[AMR][1000 genomes]
rs4946225	0.87[AMR][1000 genomes]
rs4946228	0.87[AMR][1000 genomes]
rs4946229	0.87[AMR][1000 genomes]
rs4946241	1.00[AMR][1000 genomes]
rs498589	0.87[AMR][1000 genomes]
rs500635	0.87[AMR][1000 genomes]
rs500686	0.87[AMR][1000 genomes]
rs501270	0.87[AMR][1000 genomes]
rs501347	0.87[AMR][1000 genomes]
rs504809	0.87[AMR][1000 genomes]
rs508672	0.87[AMR][1000 genomes]
rs512855	0.87[AMR][1000 genomes]
rs512954	0.87[AMR][1000 genomes]
rs528848	0.87[AMR][1000 genomes]
rs529634	0.87[AMR][1000 genomes]
rs536114	0.87[AMR][1000 genomes]
rs544549	0.87[AMR][1000 genomes]
rs552132	0.87[AMR][1000 genomes]
rs568601	0.87[AMR][1000 genomes]
rs576788	0.87[AMR][1000 genomes]
rs579268	0.87[AMR][1000 genomes]
rs60820846	0.89[EUR][1000 genomes]
rs692791	0.87[AMR][1000 genomes]
rs693099	0.87[AMR][1000 genomes]
rs693248	0.87[AMR][1000 genomes]
rs783365	0.87[AMR][1000 genomes]
rs783366	0.87[AMR][1000 genomes]
rs783367	0.87[AMR][1000 genomes]
rs783384	0.87[AMR][1000 genomes]
rs9791319	0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948766	chr6:117407275-117641016	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv2758076	chr6:117431224-117627275	Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv2759465	chr6:117431224-117627275	Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv830785	chr6:117448943-117627275	Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Enhancers Weak transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv2757190	chr6:117464048-117609529	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv886563	chr6:117496126-117552883	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv886564	chr6:117496126-117564654	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv886565	chr6:117496126-117579585	Active TSS Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv886566	chr6:117502777-117572067	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv886567	chr6:117502777-117576056	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	esv21051	chr6:117509122-117565572	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv1022387	chr6:117509172-117562540	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv604551	chr6:117509381-117565610	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
14	esv3692912	chr6:117509381-117576121	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv604552	chr6:117510203-117564654	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv1029856	chr6:117516202-117557686	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv1031286	chr6:117517870-117562540	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
18	nsv604553	chr6:117517870-117564654	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
19	nsv532050	chr6:117528154-118203005	ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:117528600-117534400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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