Variant report

Variant	rs34938318
Chromosome Location	chr20:24653908-24653909
allele	CA/TG
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:24645518..24647041-chr20:24652515..24654778,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs12624448	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12624459	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13037213	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2006216	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2223828	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2387080	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28536086	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35830266	0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs35954840	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3813914	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4405824	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56220239	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6036869	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6036876	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6036880	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6036881	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6049845	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6049851	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6049853	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6049854	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6049855	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6049856	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6049861	0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6049877	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6049878	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6049879	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs742806	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv3332519	chr20:24535099-24815615	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1061412	chr20:24629468-24887869	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv544216	chr20:24629468-24887869	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv524920	chr20:24639916-24683554	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1061537	chr20:24643869-24683649	Bivalent Enhancer Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv585744	chr20:24647725-24685440	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24641200-24654000	Weak transcription	Aorta	Aorta
2	chr20:24643400-24661400	Weak transcription	Right Atrium	heart
3	chr20:24645800-24657200	Weak transcription	Brain Anterior Caudate	brain
4	chr20:24646400-24657200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr20:24646600-24657400	Weak transcription	Brain Substantia Nigra	brain
6	chr20:24646800-24657200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr20:24646800-24657400	Weak transcription	Brain Angular Gyrus	brain
8	chr20:24649000-24657200	Weak transcription	Gastric	stomach
9	chr20:24649400-24655600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr20:24650600-24655000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr20:24651800-24659000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr20:24652200-24655000	Enhancers	NHLF	lung
13	chr20:24652400-24654600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr20:24652400-24654800	Enhancers	HSMM	muscle
15	chr20:24652600-24654400	Enhancers	HSMMtube	muscle
16	chr20:24652600-24654800	Enhancers	NHDF-Ad	bronchial
17	chr20:24652800-24654600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr20:24652800-24654800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr20:24652800-24655000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr20:24653000-24654200	Enhancers	A549	lung
21	chr20:24653000-24654400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr20:24653000-24654400	Enhancers	NHEK	skin
23	chr20:24653000-24654600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr20:24653000-24654800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr20:24653000-24654800	Enhancers	HMEC	breast
26	chr20:24653200-24654000	Enhancers	Fetal Thymus	thymus
27	chr20:24653600-24654000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr20:24653800-24654000	Enhancers	Placenta	Placenta
29	chr20:24653800-24654200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr20:24653800-24654400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
31	chr20:24653800-24654400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr20:24653800-24654400	Enhancers	Brain Hippocampus Middle	brain
33	chr20:24653800-24654400	Enhancers	Placenta Amnion	Placenta Amnion
34	chr20:24653800-24654400	Flanking Active TSS	NH-A	brain
35	chr20:24653800-24654400	Flanking Active TSS	Osteobl	bone
36	chr20:24653800-24658000	Weak transcription	Thymus	Thymus

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