Variant report

Variant	rs56016781
Chromosome Location	chr9:98790902-98790903
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SPI1	chr9:98790702-98791111	HL-60	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:98783900..98786083-chr9:98790874..98793453,2	K562	blood:
2	chr9:98790248..98792722-chr9:98793401..98795775,2	MCF-7	breast:
3	chr9:98790389..98794152-chr9:98794649..98798124,5	K562	blood:

Variant related genes	Relation type
LINC00092	TF binding region
ENSG00000225194	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10512243	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs1410297	0.81[AFR][1000 genomes]
rs17304942	0.87[AFR][1000 genomes]
rs17305138	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs17305329	0.82[EUR][1000 genomes]
rs17305917	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17396240	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs17396338	0.82[EUR][1000 genomes]
rs17396553	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs17396860	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2149099	0.81[AFR][1000 genomes]
rs34191478	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3802439	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs55645821	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55787215	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55810950	0.90[AFR][1000 genomes]
rs55983886	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs56162045	0.87[AFR][1000 genomes]
rs56225283	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62559760	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62559762	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62559763	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62559766	0.82[EUR][1000 genomes]
rs62559769	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62559794	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62559796	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62562961	0.84[AFR][1000 genomes]
rs62562980	0.87[AFR][1000 genomes]
rs62562986	0.87[AFR][1000 genomes]
rs62562989	0.87[AFR][1000 genomes]
rs62562992	0.87[AFR][1000 genomes];0.82[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	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
2	nsv524266	chr9:98780606-98804274	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv3354669	chr9:98786831-98791329	Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv3424518	chr9:98788556-98791104	Bivalent Enhancer Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98789400-98791000	Enhancers	Fetal Lung	lung
2	chr9:98789600-98791000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr9:98789800-98793200	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr9:98790000-98793600	Weak transcription	Brain Cingulate Gyrus	brain
5	chr9:98790200-98791000	Bivalent Enhancer	Fetal Muscle Leg	muscle
6	chr9:98790200-98792600	Weak transcription	Gastric	stomach
7	chr9:98790200-98793000	Weak transcription	Lung	lung
8	chr9:98790200-98793000	Weak transcription	Pancreas	Pancrea
9	chr9:98790200-98793200	Weak transcription	Brain Hippocampus Middle	brain
10	chr9:98790200-98793200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr9:98790200-98793400	Weak transcription	Right Ventricle	heart
12	chr9:98790200-98795800	Weak transcription	Esophagus	oesophagus
13	chr9:98790400-98791000	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
14	chr9:98790400-98791000	Bivalent Enhancer	Fetal Stomach	stomach
15	chr9:98790400-98792000	Weak transcription	Ovary	ovary
16	chr9:98790400-98792200	Weak transcription	Liver	Liver
17	chr9:98790400-98793000	Weak transcription	Right Atrium	heart
18	chr9:98790400-98793800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr9:98790400-98794200	Weak transcription	Spleen	Spleen
20	chr9:98790600-98791000	Weak transcription	Brain Substantia Nigra	brain
21	chr9:98790600-98791000	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
22	chr9:98790600-98793200	Weak transcription	Brain Anterior Caudate	brain
23	chr9:98790800-98791000	Bivalent Enhancer	Small Intestine	intestine
24	chr9:98790800-98792000	Weak transcription	Aorta	Aorta
25	chr9:98790800-98793400	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr9:98790800-98810800	Weak transcription	Brain Angular Gyrus	brain

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