Variant report

Variant	rs12898984
Chromosome Location	chr15:58798706-58798707
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:58797035..58800948-chr15:58803702..58808140,4	K562	blood:
2	chr15:58797460..58800451-chr15:58803881..58805523,2	K562	blood:

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs12324517	0.83[JPT][hapmap]
rs12898801	0.81[CHB][hapmap];0.94[JPT][hapmap]
rs12900448	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1823697	1.00[YRI][hapmap]
rs1823698	1.00[YRI][hapmap]
rs1839929	1.00[YRI][hapmap]
rs1869144	0.81[CHB][hapmap];0.94[JPT][hapmap]
rs1869145	0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs1968688	1.00[YRI][hapmap]
rs1968690	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs2034613	1.00[YRI][hapmap]
rs2414588	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs2899631	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs4503731	1.00[YRI][hapmap]
rs4581653	0.81[AMR][1000 genomes]
rs4774301	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4775061	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4775062	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4775064	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs4775065	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4775066	0.81[AMR][1000 genomes]
rs4775067	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4775068	1.00[YRI][hapmap]
rs6494016	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7167672	1.00[YRI][hapmap]
rs7180936	1.00[YRI][hapmap]
rs7183248	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8037479	1.00[YRI][hapmap]
rs8038906	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][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	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	esv3362898	chr15:58705732-58850860	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1043041	chr15:58744505-58876327	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv904268	chr15:58763678-58803225	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58791400-58809400	Weak transcription	Spleen	Spleen
2	chr15:58793400-58803400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:58795800-58799400	Enhancers	Fetal Thymus	thymus
4	chr15:58796400-58799400	Enhancers	Fetal Muscle Leg	muscle
5	chr15:58796400-58799600	Enhancers	Primary T cells from cord blood	blood
6	chr15:58797000-58798800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr15:58797000-58798800	Enhancers	Left Ventricle	heart
8	chr15:58797000-58799200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
9	chr15:58797200-58798800	Enhancers	Placenta Amnion	Placenta Amnion
10	chr15:58797200-58799000	Enhancers	Primary T cells fromperipheralblood	blood
11	chr15:58797200-58799000	Enhancers	Right Ventricle	heart
12	chr15:58797200-58799000	Enhancers	HSMM	muscle
13	chr15:58797200-58799200	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr15:58797200-58799200	Enhancers	Right Atrium	heart
15	chr15:58797400-58798800	Enhancers	NHDF-Ad	bronchial
16	chr15:58797400-58799200	Enhancers	Primary T helper naive cells from peripheral blood	blood
17	chr15:58797400-58799200	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr15:58797400-58799200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr15:58797400-58799200	Enhancers	Esophagus	oesophagus
20	chr15:58797400-58799600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr15:58797400-58799800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr15:58797400-58800000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr15:58797400-58800000	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr15:58797600-58798800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
25	chr15:58797600-58799000	Enhancers	Thymus	Thymus
26	chr15:58797600-58799200	Enhancers	Primary T killer memory cells from peripheral blood	blood
27	chr15:58797600-58799400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr15:58797600-58799600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr15:58797600-58799800	Enhancers	HMEC	breast
30	chr15:58797800-58798800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr15:58797800-58798800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
32	chr15:58797800-58798800	Enhancers	Muscle Satellite Cultured Cells	--
33	chr15:58797800-58799000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
34	chr15:58797800-58799000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
35	chr15:58797800-58799000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr15:58797800-58799000	Enhancers	Duodenum Mucosa	Duodenum
37	chr15:58797800-58799400	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
38	chr15:58798000-58798800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
39	chr15:58798000-58798800	Enhancers	Lung	lung
40	chr15:58798000-58798800	Flanking Active TSS	Hela-S3	cervix
41	chr15:58798000-58799000	Enhancers	Placenta	Placenta
42	chr15:58798200-58798800	Enhancers	Fetal Heart	heart
43	chr15:58798200-58798800	Enhancers	Fetal Intestine Small	intestine
44	chr15:58798200-58799000	Enhancers	Primary hematopoietic stem cells short term culture	blood
45	chr15:58798200-58799000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr15:58798200-58799000	Enhancers	Fetal Intestine Large	intestine
47	chr15:58798200-58799000	Enhancers	Psoas Muscle	Psoas
48	chr15:58798200-58799000	Enhancers	Rectal Mucosa Donor 31	rectum
49	chr15:58798200-58799000	Enhancers	Sigmoid Colon	Sigmoid Colon
50	chr15:58798200-58799000	Enhancers	Stomach Mucosa	stomach

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