Variant report

Variant	rs8027499
Chromosome Location	chr15:34501587-34501588
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:34499795..34503886-chr15:34627014..34631557,6	K562	blood:
2	chr15:34495437..34497822-chr15:34498910..34501986,3	K562	blood:
3	chr15:34500839..34504564-chr15:34529168..34532268,3	K562	blood:
4	chr15:34500871..34503422-chr15:34659158..34662481,4	K562	blood:
5	chr15:34499979..34501661-chr15:34634378..34636631,2	K562	blood:
6	chr15:34499795..34502298-chr15:34629083..34632074,3	K562	blood:
7	chr15:34498121..34503791-chr15:34514506..34519551,14	K562	blood:
8	chr15:34391225..34395745-chr15:34498845..34504196,8	K562	blood:
9	chr15:34329770..34332450-chr15:34500868..34502911,3	K562	blood:
10	chr15:34330950..34333091-chr15:34501411..34503652,2	K562	blood:
11	chr15:34474173..34475997-chr15:34500138..34502124,2	MCF-7	breast:
12	chr15:34497680..34504001-chr15:34514973..34521212,14	K562	blood:
13	chr15:34417003..34419819-chr15:34499362..34502166,2	K562	blood:
14	chr15:34500616..34503501-chr15:34610779..34612770,2	K562	blood:
15	chr15:34491377..34494902-chr15:34500682..34503965,3	K562	blood:
16	chr15:34391885..34395742-chr15:34500701..34502399,4	K562	blood:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C15orf29-1	chr15:34500718-34502270	NONHSAT041571

No data

Variant related genes	Relation type
ENSG00000134153	Chromatin interaction
ENSG00000169857	Chromatin interaction
ENSG00000128463	Chromatin interaction
ENSG00000134152	Chromatin interaction
ENSG00000140199	Chromatin interaction
ENSG00000184507	Chromatin interaction
ENSG00000182117	Chromatin interaction
ENSG00000176454	Chromatin interaction
ENSG00000182405	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10775222	0.92[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap]
rs10851950	0.82[ASN][1000 genomes]
rs10851952	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10851955	0.90[ASN][1000 genomes]
rs10851964	0.81[JPT][hapmap]
rs11073010	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11073014	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11073019	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11635964	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11636442	0.92[CEU][hapmap];0.93[CHB][hapmap];0.84[JPT][hapmap]
rs11852537	0.80[CHB][hapmap];0.84[JPT][hapmap]
rs11854686	0.89[ASN][1000 genomes]
rs11857205	0.89[ASN][1000 genomes]
rs11857684	0.81[CHB][hapmap];0.84[JPT][hapmap]
rs11858408	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12437551	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12441003	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12442758	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12591181	0.92[CEU][hapmap];0.85[JPT][hapmap]
rs12592460	0.83[ASN][1000 genomes]
rs12594077	0.81[CHB][hapmap]
rs12917397	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1836978	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1978810	0.81[CHB][hapmap];0.84[JPT][hapmap];0.89[ASN][1000 genomes]
rs28375867	0.81[ASN][1000 genomes]
rs28418847	0.81[ASN][1000 genomes]
rs28652966	0.94[ASN][1000 genomes]
rs34187931	0.81[ASN][1000 genomes]
rs4381574	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4530104	0.81[JPT][hapmap]
rs4780226	0.82[ASN][1000 genomes]
rs4780227	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4780229	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56731918	0.92[ASN][1000 genomes]
rs57834992	0.81[ASN][1000 genomes]
rs58875083	0.92[ASN][1000 genomes]
rs60905714	0.81[ASN][1000 genomes]
rs6495619	0.87[ASN][1000 genomes]
rs6495620	0.85[ASN][1000 genomes]
rs6495621	0.83[ASN][1000 genomes]
rs6495622	0.88[CEU][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6495625	0.83[ASN][1000 genomes]
rs7164448	0.81[ASN][1000 genomes]
rs7173618	0.81[ASN][1000 genomes]
rs7174014	0.87[ASN][1000 genomes]
rs7174442	0.86[CHB][hapmap]
rs7178002	0.81[ASN][1000 genomes]
rs7178203	0.86[CHB][hapmap]
rs7178988	0.81[CHB][hapmap];0.84[JPT][hapmap];0.92[ASN][1000 genomes]
rs7180024	0.81[ASN][1000 genomes]
rs7180920	0.83[ASN][1000 genomes]
rs7181687	0.86[CHB][hapmap];0.84[JPT][hapmap];0.92[ASN][1000 genomes]
rs7181902	0.86[CHB][hapmap];0.89[JPT][hapmap];0.92[ASN][1000 genomes]
rs73380126	0.81[ASN][1000 genomes]
rs73380135	0.81[ASN][1000 genomes]
rs73380141	0.81[ASN][1000 genomes]
rs73380157	0.81[ASN][1000 genomes]
rs8025406	0.92[CEU][hapmap];0.93[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs8025730	0.81[CHB][hapmap]
rs8026939	0.94[ASN][1000 genomes]
rs8027830	0.92[ASN][1000 genomes]
rs8028027	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8034315	0.92[ASN][1000 genomes]
rs8035493	0.92[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap]
rs8035954	0.85[JPT][hapmap]
rs8036468	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8040071	0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs8040732	0.93[CHB][hapmap]
rs8041977	0.83[ASN][1000 genomes]
rs8043216	0.94[CHB][hapmap];0.89[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9920654	0.82[ASN][1000 genomes]
rs9944206	0.81[ASN][1000 genomes]
rs9972505	0.86[CHB][hapmap];0.84[JPT][hapmap];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052804	chr15:34498529-34841447	Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv542341	chr15:34498529-34841447	Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv1045173	chr15:34501055-34596995	Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34479400-34501600	Weak transcription	Lung	lung
2	chr15:34479600-34501800	Weak transcription	Spleen	Spleen
3	chr15:34486400-34501600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:34492200-34501600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr15:34499800-34502600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr15:34500200-34501600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:34500200-34501600	Weak transcription	Pancreas	Pancrea
8	chr15:34500200-34502600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr15:34500400-34501600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr15:34500400-34502400	Active TSS	H1 Cell Line	embryonic stem cell
11	chr15:34500400-34502400	Active TSS	HUES48 Cell Line	embryonic stem cell
12	chr15:34500400-34502600	Active TSS	HSMM	muscle
13	chr15:34500400-34502600	Active TSS	HSMMtube	muscle
14	chr15:34500600-34501600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr15:34500600-34501600	Weak transcription	Esophagus	oesophagus
16	chr15:34500600-34502200	Active TSS	ES-I3 Cell Line	embryonic stem cell
17	chr15:34500600-34502200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr15:34500600-34502400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr15:34500600-34502400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr15:34500600-34502400	Active TSS	Fetal Muscle Leg	muscle
21	chr15:34500600-34502400	Active TSS	HMEC	breast
22	chr15:34500600-34502400	Active TSS	NHDF-Ad	bronchial
23	chr15:34500600-34502600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr15:34500600-34502600	Active TSS	Placenta	Placenta
25	chr15:34500600-34502600	Active TSS	GM12878-XiMat	blood
26	chr15:34500600-34502800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr15:34500800-34501600	Flanking Active TSS	Primary hematopoietic stem cells	blood
28	chr15:34500800-34501600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
29	chr15:34500800-34501600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
30	chr15:34500800-34501600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr15:34500800-34502200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
32	chr15:34500800-34502400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr15:34500800-34502400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr15:34500800-34502400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr15:34500800-34502400	Active TSS	Fetal Muscle Trunk	muscle
36	chr15:34500800-34502400	Active TSS	K562	blood
37	chr15:34500800-34502600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr15:34500800-34502600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr15:34500800-34502600	Active TSS	Right Atrium	heart
40	chr15:34501000-34501600	Enhancers	Primary B cells from peripheral blood	blood
41	chr15:34501000-34501600	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
42	chr15:34501000-34501600	Flanking Active TSS	Adipose Nuclei	Adipose
43	chr15:34501000-34501600	Flanking Active TSS	Brain Hippocampus Middle	brain
44	chr15:34501000-34501600	Flanking Active TSS	Brain Substantia Nigra	brain
45	chr15:34501000-34501600	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
46	chr15:34501000-34501600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
47	chr15:34501000-34501800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
48	chr15:34501000-34501800	Flanking Active TSS	Primary B cells from cord blood	blood
49	chr15:34501000-34501800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
50	chr15:34501000-34501800	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood

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