Variant report

Variant	rs56361536
Chromosome Location	chr3:51361084-51361085
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs17051747	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17051755	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55640023	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57569631	0.96[AFR][1000 genomes]
rs59599274	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60862896	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837422	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837423	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837431	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837432	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837433	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837434	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7630259	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7635095	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7642077	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9990213	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005858	chr3:51090373-51444027	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv536569	chr3:51090373-51444027	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
4	esv20206	chr3:51344873-51415825	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51340000-51370800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:51341600-51372000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:51344200-51371800	Weak transcription	Brain Substantia Nigra	brain
4	chr3:51351800-51367600	Weak transcription	Brain Anterior Caudate	brain
5	chr3:51351800-51369200	Weak transcription	Brain Hippocampus Middle	brain
6	chr3:51352800-51369800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:51353000-51370000	Weak transcription	Brain Germinal Matrix	brain
8	chr3:51353000-51370200	Weak transcription	Stomach Smooth Muscle	stomach
9	chr3:51353200-51367600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr3:51353200-51370200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr3:51353400-51369400	Weak transcription	Fetal Brain Female	brain
12	chr3:51353400-51375800	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr3:51353400-51377600	Weak transcription	Left Ventricle	heart
14	chr3:51353800-51367600	Weak transcription	Brain Cingulate Gyrus	brain
15	chr3:51358000-51376200	Weak transcription	HSMMtube	muscle
16	chr3:51358200-51367400	Weak transcription	Brain Angular Gyrus	brain
17	chr3:51358800-51377400	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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