Variant report

Variant	rs6801271
Chromosome Location	chr3:85090935-85090936
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10433523	0.82[EUR][1000 genomes]
rs11127873	0.83[EUR][1000 genomes]
rs2035562	0.82[JPT][hapmap]
rs2087011	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4410457	0.83[EUR][1000 genomes]
rs4499618	0.82[CHB][hapmap];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4856559	0.86[CHB][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6549009	0.86[CHB][hapmap];0.82[JPT][hapmap];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6549011	0.82[EUR][1000 genomes]
rs6549012	0.83[EUR][1000 genomes]
rs6765011	0.83[EUR][1000 genomes]
rs6790864	0.83[EUR][1000 genomes]
rs6796393	0.83[EUR][1000 genomes]
rs7636138	0.81[EUR][1000 genomes]
rs9814835	0.83[EUR][1000 genomes]
rs9820587	0.81[EUR][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	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

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85082600-85091600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr3:85086800-85092000	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr3:85089400-85091000	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr3:85089400-85093400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:85089800-85091200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr3:85090000-85091200	Enhancers	Brain Germinal Matrix	brain
7	chr3:85090000-85092000	Enhancers	Fetal Brain Female	brain
8	chr3:85090400-85091600	Enhancers	Fetal Brain Male	brain
9	chr3:85090600-85091600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:85090800-85091200	Enhancers	Brain Cingulate Gyrus	brain
11	chr3:85090800-85092200	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr3:85090800-85093000	Weak transcription	Brain Angular Gyrus	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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