Variant report

Variant	rs7849650
Chromosome Location	chr9:101064637-101064638
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101053777..101056513-chr9:101062156..101064768,2	K562	blood:
2	chr9:101063724..101066732-chr9:101068863..101071288,3	MCF-7	breast:
3	chr9:100684379..100686017-chr9:101064394..101066940,2	MCF-7	breast:
4	chr9:101056088..101057928-chr9:101062549..101064889,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136932	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs12006182	1.00[EUR][1000 genomes]
rs1435263	0.81[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3205936	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs34701111	0.83[AMR][1000 genomes]
rs4546761	1.00[EUR][1000 genomes]
rs55739315	1.00[EUR][1000 genomes]
rs55745247	1.00[EUR][1000 genomes]
rs56070637	1.00[EUR][1000 genomes]
rs56072170	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56326520	1.00[EUR][1000 genomes]
rs59263286	1.00[EUR][1000 genomes]
rs60654357	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61563252	0.83[AMR][1000 genomes]
rs6478702	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7024796	1.00[EUR][1000 genomes]
rs7025048	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7028502	0.85[AMR][1000 genomes]
rs7044963	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7048026	1.00[EUR][1000 genomes]
rs73490764	0.83[AMR][1000 genomes]
rs73490778	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73490781	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73490782	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73490784	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73490792	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73490796	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73497005	1.00[EUR][1000 genomes]
rs73497010	1.00[EUR][1000 genomes]
rs73502819	1.00[EUR][1000 genomes]
rs73655418	1.00[EUR][1000 genomes]
rs7849709	0.85[AFR][1000 genomes]
rs7849965	0.93[ASW][hapmap];0.86[LWK][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.85[AFR][1000 genomes]
rs7850574	0.86[AFR][1000 genomes]
rs7853722	0.86[AFR][1000 genomes]
rs7859650	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7860369	0.83[AFR][1000 genomes]
rs7863965	0.86[AFR][1000 genomes]
rs7865635	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7865868	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7869257	0.87[YRI][hapmap];0.84[AFR][1000 genomes]

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	nsv430085	chr9:100928245-101339645	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv831663	chr9:100941048-101109492	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv1045780	chr9:100943318-101080389	Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv540180	chr9:100943318-101080389	Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv831664	chr9:101024862-101205637	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv519818	chr9:101024887-101092316	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats	Chromatin interactive region	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7849650	CORO2A	cis	lymphoblastoid	seeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101052400-101065800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:101055400-101068400	Weak transcription	Brain Germinal Matrix	brain
3	chr9:101056200-101064800	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr9:101061400-101067200	Weak transcription	Brain Cingulate Gyrus	brain
5	chr9:101061600-101083400	Weak transcription	Brain Angular Gyrus	brain
6	chr9:101061800-101070000	Enhancers	Placenta	Placenta
7	chr9:101062000-101078000	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr9:101063200-101065400	Weak transcription	Fetal Intestine Small	intestine
9	chr9:101063400-101064800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr9:101063400-101071600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr9:101063600-101066200	Enhancers	K562	blood
12	chr9:101063600-101071800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr9:101063800-101068000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr9:101064400-101065000	Enhancers	Left Ventricle	heart
15	chr9:101064400-101065400	Enhancers	Adipose Nuclei	Adipose
16	chr9:101064600-101064800	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
17	chr9:101064600-101067000	Strong transcription	Fetal Brain Female	brain
18	chr9:101064600-101067000	Enhancers	Fetal Muscle Trunk	muscle
19	chr9:101064600-101069000	Weak transcription	HUVEC	blood vessel

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