Variant report

Variant	rs34866549
Chromosome Location	chr3:24025338-24025339
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:23958550..23960376-chr3:24025288..24026862,2	K562	blood:
2	chr1:40088745..40091212-chr3:24023739..24025903,2	MCF-7	breast:
3	chr3:24024517..24026197-chr3:24189015..24191954,2	K562	blood:

Variant related genes	Relation type
ENSG00000197885	Chromatin interaction
ENSG00000174748	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10084748	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1037635	1.00[ASN][1000 genomes]
rs11129128	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13070128	1.00[ASN][1000 genomes]
rs13087250	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13316457	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13317815	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13321439	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13321440	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1533141	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1567579	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1567580	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28524116	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34036067	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34058540	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34082882	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34593533	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34953164	1.00[ASN][1000 genomes]
rs35136361	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35457462	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35755171	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35755253	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36063721	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36089963	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3762775	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3935253	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4131404	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4300960	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4490300	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4535169	1.00[ASN][1000 genomes]
rs4602333	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858096	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858554	1.00[ASN][1000 genomes]
rs4858556	1.00[ASN][1000 genomes]
rs4858564	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55932805	1.00[ASN][1000 genomes]
rs6550808	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66609380	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67002637	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67236598	1.00[ASN][1000 genomes]
rs67606949	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767005	1.00[ASN][1000 genomes]
rs6770052	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6775878	1.00[ASN][1000 genomes]
rs6776201	1.00[ASN][1000 genomes]
rs6776568	1.00[ASN][1000 genomes]
rs6778577	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6790140	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6791805	1.00[ASN][1000 genomes]
rs6803214	1.00[ASN][1000 genomes]
rs6803587	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71324126	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73150266	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73150299	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7610689	1.00[ASN][1000 genomes]
rs7610935	1.00[ASN][1000 genomes]
rs7611018	1.00[ASN][1000 genomes]
rs954748	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9809225	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812419	1.00[ASN][1000 genomes]
rs9812870	0.85[EUR][1000 genomes]
rs9817923	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9853954	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9855481	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9859567	1.00[ASN][1000 genomes]
rs9863176	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9875577	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882067	1.00[ASN][1000 genomes]
rs9883834	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23989200-24033200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr3:24005600-24032800	Weak transcription	NH-A	brain
3	chr3:24010200-24028800	Weak transcription	HUVEC	blood vessel
4	chr3:24018200-24033200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr3:24018400-24032200	Weak transcription	Fetal Brain Female	brain
6	chr3:24018400-24032400	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr3:24019400-24032800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:24019400-24032800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr3:24019400-24032800	Weak transcription	Primary T cells from cord blood	blood
10	chr3:24019400-24032800	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr3:24019400-24033200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr3:24019400-24035400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr3:24019600-24027600	Weak transcription	Fetal Brain Male	brain
14	chr3:24019600-24028600	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr3:24019600-24040800	Weak transcription	NHLF	lung
16	chr3:24020200-24032800	Weak transcription	Primary B cells from peripheral blood	blood
17	chr3:24021400-24032600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr3:24021400-24032800	Weak transcription	Fetal Heart	heart
19	chr3:24021600-24033200	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr3:24021800-24033200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr3:24021800-24033400	Weak transcription	NHDF-Ad	bronchial
22	chr3:24023000-24025600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr3:24023000-24030200	Weak transcription	Pancreas	Pancrea
24	chr3:24023200-24026800	Weak transcription	Esophagus	oesophagus
25	chr3:24023200-24035000	Weak transcription	Right Atrium	heart
26	chr3:24023200-24035200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr3:24023400-24032200	Weak transcription	Stomach Smooth Muscle	stomach
28	chr3:24023400-24033200	Weak transcription	Adipose Nuclei	Adipose
29	chr3:24023600-24028600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr3:24023600-24033400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr3:24024000-24028600	Weak transcription	Lung	lung
32	chr3:24024000-24030400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr3:24024000-24033200	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr3:24024000-24035200	Weak transcription	Left Ventricle	heart
35	chr3:24024200-24032200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr3:24024400-24032200	Weak transcription	Brain Substantia Nigra	brain
37	chr3:24024600-24025400	Enhancers	Primary hematopoietic stem cells	blood
38	chr3:24024600-24025400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr3:24024800-24025600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr3:24024800-24025800	Enhancers	GM12878-XiMat	blood
41	chr3:24025000-24025600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr3:24025200-24025400	Enhancers	Primary B cells from cord blood	blood
43	chr3:24025200-24025400	Enhancers	Primary hematopoietic stem cells short term culture	blood

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