Variant report

Variant	rs17014900
Chromosome Location	chr3:24633431-24633432
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24315110..24317953-chr3:24633288..24636026,3	MCF-7	breast:
2	chr3:24567024..24569936-chr3:24632741..24634847,2	K562	blood:
3	chr3:24631935..24633898-chr3:24636048..24638829,2	MCF-7	breast:
4	chr3:24535097..24538455-chr3:24631744..24636761,7	MCF-7	breast:
5	chr3:24350162..24351776-chr3:24632242..24634979,2	MCF-7	breast:
6	chr3:24599960..24602220-chr3:24631656..24634494,2	K562	blood:

Variant related genes	Relation type
ENSG00000151090	Chromatin interaction
ENSG00000228791	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10212332	0.80[ASN][1000 genomes]
rs10490837	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11708042	0.84[EUR][1000 genomes]
rs11712286	0.86[CHB][hapmap]
rs11715809	0.86[EUR][1000 genomes]
rs13318800	0.86[EUR][1000 genomes]
rs17014902	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1992040	0.87[CHB][hapmap];0.86[EUR][1000 genomes]
rs2043579	0.88[EUR][1000 genomes]
rs2117874	0.81[EUR][1000 genomes]
rs2196434	0.81[ASN][1000 genomes]
rs2196435	0.88[EUR][1000 genomes]
rs2196438	0.86[CHB][hapmap];0.86[EUR][1000 genomes]
rs28562279	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3919672	0.93[CHB][hapmap]
rs56135387	0.88[EUR][1000 genomes]
rs56268655	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56281969	0.86[EUR][1000 genomes]
rs58152527	0.80[ASN][1000 genomes]
rs61701305	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6550879	0.93[CHB][hapmap];0.80[ASN][1000 genomes]
rs6767717	0.81[ASN][1000 genomes]
rs6769209	0.86[EUR][1000 genomes]
rs6771818	0.86[EUR][1000 genomes]
rs6795607	0.93[CHB][hapmap]
rs6801494	0.81[ASN][1000 genomes]
rs73036499	0.82[EUR][1000 genomes]
rs73036501	0.82[EUR][1000 genomes]
rs73038411	0.92[EUR][1000 genomes]
rs73038427	0.92[EUR][1000 genomes]
rs73040438	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73040440	0.85[EUR][1000 genomes]
rs73040465	0.86[EUR][1000 genomes]
rs73040478	0.86[EUR][1000 genomes]
rs73040479	0.86[EUR][1000 genomes]
rs7647700	0.86[EUR][1000 genomes]
rs930317	0.81[ASN][1000 genomes]
rs9310745	0.93[CHB][hapmap];0.84[EUR][1000 genomes]
rs9819865	0.93[CHB][hapmap];0.81[ASN][1000 genomes]
rs9823545	0.87[CHB][hapmap];0.86[EUR][1000 genomes]
rs9830859	1.00[CHB][hapmap]
rs9835497	0.93[CHB][hapmap];0.84[EUR][1000 genomes]
rs9838616	0.86[CHB][hapmap];0.86[EUR][1000 genomes]
rs9838720	0.85[CHB][hapmap];0.86[EUR][1000 genomes]
rs9843609	0.86[EUR][1000 genomes]
rs9844544	0.86[EUR][1000 genomes]
rs9850781	0.86[EUR][1000 genomes]
rs9853927	0.93[CHB][hapmap];0.86[EUR][1000 genomes]
rs9861129	0.92[CHB][hapmap];0.86[EUR][1000 genomes]
rs9868375	1.00[CHB][hapmap]
rs9873830	1.00[CHB][hapmap];0.84[EUR][1000 genomes]
rs9878606	0.81[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	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv999384	chr3:24525345-24656873	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24629600-24633600	Enhancers	Rectal Mucosa Donor 31	rectum
2	chr3:24630800-24634200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr3:24630800-24640800	Weak transcription	Small Intestine	intestine
4	chr3:24631200-24636000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr3:24631400-24634600	Enhancers	HMEC	breast
6	chr3:24631400-24635200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr3:24631600-24634200	Enhancers	Muscle Satellite Cultured Cells	--
8	chr3:24631600-24634200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:24631600-24634400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr3:24631600-24634400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr3:24631800-24634600	Enhancers	Fetal Intestine Large	intestine
12	chr3:24632000-24636200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:24632000-24637200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr3:24632000-24640000	Weak transcription	Duodenum Mucosa	Duodenum
15	chr3:24632200-24635800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr3:24632200-24637200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr3:24632600-24633800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr3:24632600-24634200	Enhancers	Rectal Mucosa Donor 29	rectum
19	chr3:24632600-24634600	Enhancers	Fetal Intestine Small	intestine
20	chr3:24632800-24633600	Enhancers	Stomach Mucosa	stomach
21	chr3:24632800-24633600	Enhancers	NHDF-Ad	bronchial
22	chr3:24632800-24633800	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr3:24632800-24634600	Enhancers	Primary hematopoietic stem cells	blood
24	chr3:24633000-24633600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr3:24633000-24633600	Enhancers	HSMM	muscle
26	chr3:24633000-24633800	Enhancers	Fetal Brain Male	brain
27	chr3:24633000-24633800	Enhancers	Placenta	Placenta
28	chr3:24633000-24633800	Enhancers	A549	lung
29	chr3:24633000-24634400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr3:24633000-24634600	Enhancers	Hela-S3	cervix
31	chr3:24633200-24633800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr3:24633200-24633800	Enhancers	HUVEC	blood vessel
33	chr3:24633200-24640000	Weak transcription	Fetal Lung	lung
34	chr3:24633400-24633600	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr3:24633400-24633800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr3:24633400-24633800	Enhancers	K562	blood
37	chr3:24633400-24633800	Flanking Active TSS	NHEK	skin

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