Variant report

Variant	rs56108788
Chromosome Location	chr9:33493949-33493950
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs3860990	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs57867764	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7022355	0.94[EUR][1000 genomes]
rs72709610	0.81[AMR][1000 genomes]
rs72709611	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72709612	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72709613	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72709621	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72709624	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72709629	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72709632	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72709635	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024207	chr9:33296368-33574892	Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
2	nsv972306	chr9:33486353-33510883	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:33474800-33496000	Weak transcription	HUVEC	blood vessel
2	chr9:33474800-33498200	Weak transcription	HSMMtube	muscle
3	chr9:33475000-33494400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr9:33475000-33510400	Weak transcription	Fetal Lung	lung
5	chr9:33475000-33510600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr9:33477000-33496000	Weak transcription	Brain Angular Gyrus	brain
7	chr9:33478800-33510600	Weak transcription	Fetal Muscle Leg	muscle
8	chr9:33489600-33494000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr9:33489800-33494000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr9:33489800-33496000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr9:33493800-33494200	Enhancers	NH-A	brain
12	chr9:33493800-33494400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr9:33493800-33494600	Flanking Active TSS	K562	blood
14	chr9:33493800-33494800	Enhancers	A549	lung
15	chr9:33493800-33495000	Enhancers	Stomach Mucosa	stomach
16	chr9:33493800-33495000	Enhancers	Hela-S3	cervix

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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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