Variant report

Variant	rs9835616
Chromosome Location	chr3:85307824-85307825
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs13324607	1.00[YRI][hapmap]
rs56057829	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57263837	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59676495	1.00[AMR][1000 genomes]
rs73843296	0.86[AFR][1000 genomes]
rs73843297	0.86[AFR][1000 genomes]
rs73843298	0.86[AFR][1000 genomes]
rs73843300	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73843301	1.00[AMR][1000 genomes]
rs73845404	1.00[AMR][1000 genomes]
rs73845409	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73845415	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73845429	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73845430	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9810866	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9821283	1.00[YRI][hapmap]
rs9838538	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9855678	1.00[YRI][hapmap]
rs9855964	1.00[AMR][1000 genomes]
rs9856305	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9862826	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9870282	1.00[YRI][hapmap]
rs9875722	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9876453	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9877705	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9878308	1.00[AFR][1000 genomes];1.00[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	nsv1002058	chr3:84757044-85389876	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv492289	chr3:85066623-85319147	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2753915	chr3:85071410-85624810	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv877096	chr3:85163167-85366517	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv460747	chr3:85163167-85391672	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv590899	chr3:85163167-85391672	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1001124	chr3:85167047-85309046	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv877098	chr3:85177173-85361645	ZNF genes & repeats Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv470716	chr3:85194054-85316648	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv590903	chr3:85200742-85316648	ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv999255	chr3:85222822-85323285	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv536617	chr3:85222822-85323285	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv877100	chr3:85234199-85336559	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv1006718	chr3:85243599-85323285	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv1012601	chr3:85246185-85426996	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv536618	chr3:85246185-85426996	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv948806	chr3:85304744-85463443	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
19	nsv1013407	chr3:85307022-85460325	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85303000-85308200	Weak transcription	Brain Germinal Matrix	brain
2	chr3:85307200-85309000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:85307400-85308400	Active TSS	Brain Anterior Caudate	brain
4	chr3:85307400-85309200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:85307600-85308000	Active TSS	Cortex derived primary cultured neurospheres	brain
6	chr3:85307600-85308200	Active TSS	Brain Cingulate Gyrus	brain
7	chr3:85307600-85308200	Active TSS	Fetal Brain Female	brain
8	chr3:85307600-85308400	Active TSS	Brain Angular Gyrus	brain
9	chr3:85307600-85308400	Active TSS	Brain Hippocampus Middle	brain
10	chr3:85307600-85308400	Active TSS	Brain Inferior Temporal Lobe	brain
11	chr3:85307600-85308400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr3:85307600-85308400	Active TSS	Brain Substantia Nigra	brain
13	chr3:85307600-85309200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:85307800-85308200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain

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