Variant report

Variant	rs12683865
Chromosome Location	chr9:8669129-8669130
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1033125	0.85[CEU][hapmap]
rs1033126	0.81[EUR][1000 genomes]
rs12682756	0.85[CEU][hapmap];0.86[JPT][hapmap];0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12686188	0.85[CEU][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12686852	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs16924692	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs16928219	0.85[CEU][hapmap]
rs16928232	0.85[CEU][hapmap]
rs35286414	0.82[EUR][1000 genomes]
rs3750490	0.85[CEU][hapmap]
rs7849404	0.85[CEU][hapmap];0.90[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031472	chr9:8250901-8712547	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv1022796	chr9:8360729-9110046	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv892228	chr9:8482778-8703733	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv892232	chr9:8645448-8698875	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv892233	chr9:8645448-8702964	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv892234	chr9:8645448-8703733	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8660800-8672400	Weak transcription	Brain Germinal Matrix	brain
2	chr9:8661400-8677400	Weak transcription	Brain Angular Gyrus	brain
3	chr9:8666200-8670800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr9:8667000-8672400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr9:8668000-8672600	Enhancers	Fetal Brain Female	brain
6	chr9:8668400-8671200	Enhancers	Brain Hippocampus Middle	brain
7	chr9:8668600-8669600	Weak transcription	Brain Substantia Nigra	brain
8	chr9:8668800-8669200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr9:8668800-8669200	Enhancers	Brain Anterior Caudate	brain
10	chr9:8668800-8669400	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr9:8668800-8671000	Enhancers	Brain Cingulate Gyrus	brain
12	chr9:8668800-8672600	Enhancers	Fetal Brain Male	brain
13	chr9:8669000-8669400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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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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