Variant report

Variant	rs1094328
Chromosome Location	chr9:6029644-6029645
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12337790	0.81[GIH][hapmap]
rs1411948	0.88[CEU][hapmap];0.85[TSI][hapmap]
rs1478938	1.00[CEU][hapmap];0.86[TSI][hapmap]
rs17494996	0.88[CEU][hapmap];0.89[TSI][hapmap]
rs1888703	1.00[CEU][hapmap];0.90[TSI][hapmap]
rs2045959	0.86[EUR][1000 genomes]
rs2233178	0.85[MEX][hapmap]
rs343469	0.88[JPT][hapmap]
rs343471	0.88[JPT][hapmap]
rs343480	0.88[JPT][hapmap]
rs343482	1.00[JPT][hapmap]
rs343500	0.88[JPT][hapmap]
rs7859471	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs7866793	0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948847	chr9:5712626-6417677	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1031086	chr9:5806949-6630686	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv539967	chr9:5806949-6630686	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv892155	chr9:5825768-6044937	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv1015450	chr9:5915640-6114652	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	11 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	chr9:6023200-6029800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:6028800-6030400	Enhancers	Brain Substantia Nigra	brain
3	chr9:6029200-6029800	Enhancers	Brain Cingulate Gyrus	brain
4	chr9:6029200-6030400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr9:6029200-6030400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
6	chr9:6029200-6030400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr9:6029400-6030200	Enhancers	Brain Anterior Caudate	brain
8	chr9:6029400-6030400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:6029400-6030400	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr9:6029600-6029800	Enhancers	Brain Hippocampus Middle	brain
11	chr9:6029600-6030000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr9:6029600-6030000	Enhancers	Brain Inferior Temporal Lobe	brain
13	chr9:6029600-6030400	Enhancers	Pancreatic Islets	Pancreatic Islet

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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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