Variant report

Variant	rs1533141
Chromosome Location	chr3:24039297-24039298
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:23961544..23965594-chr3:24039129..24042717,4	K562	blood:
2	chr3:23986774..23989420-chr3:24037781..24039507,2	K562	blood:
3	chr3:24033657..24035811-chr3:24038955..24040843,2	MCF-7	breast:
4	chr3:24033672..24036269-chr3:24038559..24040609,2	K562	blood:

Variant related genes	Relation type
ENSG00000197885	Chromatin interaction
ENSG00000174738	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10084748	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11129128	0.85[EUR][1000 genomes]
rs13087250	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13316457	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13317815	0.87[EUR][1000 genomes]
rs13321439	0.87[EUR][1000 genomes]
rs13321440	0.87[EUR][1000 genomes]
rs1567579	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1567580	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28524116	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34036067	0.82[EUR][1000 genomes]
rs34058540	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34082882	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34593533	0.87[EUR][1000 genomes]
rs34812592	0.81[AMR][1000 genomes]
rs34866549	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35136361	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35457462	0.84[EUR][1000 genomes]
rs35755171	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35755253	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs36063721	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs36089963	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3762775	0.82[EUR][1000 genomes]
rs3935253	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4131404	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4300960	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4490300	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4602333	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4858096	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4858099	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4858564	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4858571	0.83[AMR][1000 genomes]
rs6550808	0.82[EUR][1000 genomes]
rs6550831	0.81[AMR][1000 genomes]
rs66609380	0.85[EUR][1000 genomes]
rs67002637	0.80[EUR][1000 genomes]
rs67606949	0.84[EUR][1000 genomes]
rs6770052	0.87[EUR][1000 genomes]
rs6778577	0.85[EUR][1000 genomes]
rs6790140	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6803587	0.87[EUR][1000 genomes]
rs71324126	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73150266	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73150299	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7372315	0.81[AMR][1000 genomes]
rs7426647	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7434131	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs954748	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9809225	0.84[EUR][1000 genomes]
rs9812870	0.82[EUR][1000 genomes]
rs9817923	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9853954	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9855481	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9863176	0.84[EUR][1000 genomes]
rs9883834	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834638	chr3:23963860-24117191	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats 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	19 gene(s)	inside rSNPs	diseases
3	nsv834639	chr3:24037113-24233925	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	esv2445500	chr3:24039298-24039298	Weak transcription	Chromatin interactive region	2 gene(s)	n/a	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24019600-24040800	Weak transcription	NHLF	lung
2	chr3:24030800-24040400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:24033600-24040600	Weak transcription	Primary B cells from cord blood	blood
4	chr3:24033800-24040600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr3:24034600-24040400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:24035200-24040600	Weak transcription	Brain Anterior Caudate	brain
7	chr3:24035800-24040400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:24035800-24040600	Weak transcription	Brain Angular Gyrus	brain
9	chr3:24036000-24040400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr3:24036000-24040400	Weak transcription	HSMMtube	muscle
11	chr3:24036000-24040400	Weak transcription	NHDF-Ad	bronchial
12	chr3:24036000-24040600	Weak transcription	Brain Germinal Matrix	brain
13	chr3:24036000-24040600	Weak transcription	Brain Hippocampus Middle	brain
14	chr3:24036000-24040600	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr3:24036000-24040600	Weak transcription	Brain Substantia Nigra	brain
16	chr3:24036000-24040800	Weak transcription	Ovary	ovary
17	chr3:24036000-24053400	Weak transcription	Psoas Muscle	Psoas
18	chr3:24036200-24040400	Weak transcription	Adipose Nuclei	Adipose
19	chr3:24036200-24040600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:24036200-24040600	Weak transcription	Brain Cingulate Gyrus	brain
21	chr3:24036200-24040600	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr3:24036200-24040600	Weak transcription	Fetal Kidney	kidney
23	chr3:24036200-24040600	Weak transcription	Rectal Smooth Muscle	rectum
24	chr3:24036200-24040600	Weak transcription	Stomach Smooth Muscle	stomach
25	chr3:24036200-24040800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr3:24036400-24040400	Weak transcription	Colon Smooth Muscle	Colon
27	chr3:24036400-24040800	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr3:24036400-24043600	Weak transcription	Aorta	Aorta
29	chr3:24038000-24040800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr3:24038600-24040400	Weak transcription	Fetal Stomach	stomach
31	chr3:24038800-24040800	Weak transcription	Fetal Lung	lung
32	chr3:24039000-24040600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr3:24039000-24040600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr3:24039000-24040800	Weak transcription	Primary hematopoietic stem cells	blood

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