Variant report

Variant	rs58938096
Chromosome Location	chr15:43005804-43005805
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:43004420..43008133-chr15:43008696..43011545,3	K562	blood:
2	chr15:43002992..43005620-chr15:43005783..43008129,2	K562	blood:
3	chr15:43005044..43007388-chr15:43020446..43022660,2	K562	blood:

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1058846	0.90[EUR][1000 genomes]
rs12102055	0.82[EUR][1000 genomes]
rs12594855	0.82[EUR][1000 genomes]
rs12902830	0.92[EUR][1000 genomes]
rs12903762	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12905385	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12905592	0.90[EUR][1000 genomes]
rs12907826	0.91[EUR][1000 genomes]
rs12911585	0.80[EUR][1000 genomes]
rs12913618	0.83[EUR][1000 genomes]
rs12917189	0.85[EUR][1000 genomes]
rs17774047	0.90[EUR][1000 genomes]
rs1995939	0.81[EUR][1000 genomes]
rs2136899	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2136900	0.85[EUR][1000 genomes]
rs2136901	0.95[EUR][1000 genomes]
rs2175370	0.87[EUR][1000 genomes]
rs2280048	0.81[EUR][1000 genomes]
rs2305085	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2412740	0.81[EUR][1000 genomes]
rs2412741	0.90[EUR][1000 genomes]
rs28562951	0.86[EUR][1000 genomes]
rs3199486	0.81[EUR][1000 genomes]
rs34070722	0.83[EUR][1000 genomes]
rs34191150	0.95[EUR][1000 genomes]
rs34603230	0.90[EUR][1000 genomes]
rs35088691	0.81[EUR][1000 genomes]
rs35392023	0.92[EUR][1000 genomes]
rs35616173	0.95[EUR][1000 genomes]
rs35738819	0.86[EUR][1000 genomes]
rs3742988	0.90[EUR][1000 genomes]
rs3742993	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4545789	0.90[EUR][1000 genomes]
rs4923950	0.85[EUR][1000 genomes]
rs4924692	0.90[EUR][1000 genomes]
rs4924694	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs57298545	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61122145	0.91[EUR][1000 genomes]
rs6493060	0.88[EUR][1000 genomes]
rs6493061	0.93[EUR][1000 genomes]
rs6493062	0.93[EUR][1000 genomes]
rs66681258	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs672054	0.81[EUR][1000 genomes]
rs71474496	0.82[EUR][1000 genomes]
rs7166373	0.86[EUR][1000 genomes]
rs7174041	0.88[EUR][1000 genomes]
rs7175582	0.82[EUR][1000 genomes]
rs7176860	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7182479	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7183487	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs731984	0.91[EUR][1000 genomes]
rs8023524	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8024902	0.90[EUR][1000 genomes]
rs8030587	0.88[EUR][1000 genomes]
rs8031218	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8034447	0.90[EUR][1000 genomes]
rs8039711	0.90[EUR][1000 genomes]
rs8039765	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9269	0.83[EUR][1000 genomes]
rs938047	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9783713	0.82[EUR][1000 genomes]
rs9919994	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9944248	0.86[EUR][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	nsv528725	chr15:42755555-43104406	Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv427959	chr15:42931181-43207353	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv457122	chr15:42948862-43062548	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv569238	chr15:42948862-43062548	Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv517553	chr15:42970899-43023482	Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
6	esv2763096	chr15:42989603-43009399	Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42908800-43015000	Weak transcription	Fetal Kidney	kidney
2	chr15:42975600-43011400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr15:42976600-43015200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:42977000-43011600	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr15:42977000-43016600	Weak transcription	Hela-S3	cervix
6	chr15:42978200-43010400	Weak transcription	Thymus	Thymus
7	chr15:42978800-43012000	Weak transcription	NH-A	brain
8	chr15:42979200-43011000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr15:42979600-43010000	Weak transcription	GM12878-XiMat	blood
10	chr15:42979800-43010600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr15:42980400-43010400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr15:42981400-43015000	Weak transcription	HSMM	muscle
13	chr15:42981600-43009800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr15:42981600-43011000	Weak transcription	Duodenum Mucosa	Duodenum
15	chr15:42981800-43010000	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr15:42984000-43014800	Weak transcription	K562	blood
17	chr15:42986000-43018400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr15:42987200-43010000	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr15:42987800-43008800	Weak transcription	Aorta	Aorta
20	chr15:42987800-43016400	Weak transcription	Esophagus	oesophagus
21	chr15:42988000-43010200	Weak transcription	Colonic Mucosa	Colon
22	chr15:42988200-43010200	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr15:42988400-43008200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr15:42988400-43008600	Weak transcription	Brain Cingulate Gyrus	brain
25	chr15:42988400-43009600	Weak transcription	Fetal Intestine Small	intestine
26	chr15:42988400-43010600	Weak transcription	NHLF	lung
27	chr15:42988600-43008400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr15:42989000-43008800	Weak transcription	Rectal Smooth Muscle	rectum
29	chr15:42989000-43009000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr15:42989000-43010000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr15:42989000-43010400	Weak transcription	Placenta	Placenta
32	chr15:42989000-43011800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr15:42989200-43009600	Weak transcription	Left Ventricle	heart
34	chr15:42989200-43010200	Weak transcription	Brain Angular Gyrus	brain
35	chr15:42989200-43010200	Weak transcription	Ovary	ovary
36	chr15:42989800-43009000	Weak transcription	Right Ventricle	heart
37	chr15:42990000-43009000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr15:42991000-43008600	Weak transcription	NHDF-Ad	bronchial
39	chr15:42992400-43008600	Weak transcription	Fetal Brain Female	brain
40	chr15:42993400-43008400	Weak transcription	Brain Substantia Nigra	brain
41	chr15:42993400-43008800	Weak transcription	Primary B cells from cord blood	blood
42	chr15:42993400-43008800	Weak transcription	Brain Germinal Matrix	brain
43	chr15:42993400-43009000	Weak transcription	Brain Hippocampus Middle	brain
44	chr15:42993400-43010200	Weak transcription	Primary T cells from cord blood	blood
45	chr15:42993400-43010800	Weak transcription	Fetal Lung	lung
46	chr15:42993400-43015400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr15:42993600-43008800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr15:42994200-43010000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr15:42994400-43009200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr15:42995400-43009000	Weak transcription	Cortex derived primary cultured neurospheres	brain

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