Variant report

Variant	rs6663676
Chromosome Location	chr1:171945594-171945595
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10910941	1.00[AMR][1000 genomes]
rs12059900	1.00[AMR][1000 genomes]
rs12060632	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12062104	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12067192	1.00[AMR][1000 genomes]
rs12070381	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12071915	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12072055	1.00[AMR][1000 genomes]
rs12075392	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12083356	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12089487	1.00[AMR][1000 genomes]
rs12093037	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12093751	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12097783	1.00[AMR][1000 genomes]
rs13353039	1.00[AMR][1000 genomes]
rs16843624	1.00[AMR][1000 genomes]
rs6668588	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7539162	1.00[AMR][1000 genomes]
rs9724787	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	esv3512995	chr1:171329123-171994470	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	esv3512997	chr1:171329123-171994470	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv831893	chr1:171802450-171985000	Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv532342	chr1:171922237-172133785	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	62 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171936600-171948600	Weak transcription	Brain Cingulate Gyrus	brain
2	chr1:171937400-171958000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:171937800-171947400	Weak transcription	Brain Substantia Nigra	brain
4	chr1:171941800-171954600	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr1:171942600-171948600	Weak transcription	Brain Hippocampus Middle	brain
6	chr1:171945400-171945600	Enhancers	Brain Inferior Temporal Lobe	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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