Variant report

Variant	rs7641527
Chromosome Location	chr3:105550927-105550928
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs12054270	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12487349	0.82[ASN][1000 genomes]
rs12493071	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12632595	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs1443100	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1503923	0.85[AMR][1000 genomes]
rs16851512	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16851553	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16851673	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16851705	0.85[AMR][1000 genomes]
rs16851706	0.85[AMR][1000 genomes]
rs16851707	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1814078	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1867194	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2028598	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2028599	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2055558	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2055559	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2120103	0.81[AMR][1000 genomes]
rs2120104	0.88[ASN][1000 genomes]
rs2301028	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2301034	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2301035	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3213928	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34360428	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35909361	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3772517	0.90[ASN][1000 genomes]
rs3772522	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3772525	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3821490	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4431143	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4469007	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4894956	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255570	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62255571	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62255572	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62255573	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62255575	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62256353	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62258160	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62261460	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62261462	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62261487	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62261489	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62261491	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62261492	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62261493	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62261495	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62261496	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62261497	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62261498	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62261499	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62261538	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62261539	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62263056	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs62263057	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62263059	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs62263169	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62263170	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62264260	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6809776	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7619706	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7628896	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7631219	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7650046	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs964173	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9657903	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9657924	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs971109	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9849559	0.88[ASN][1000 genomes]
rs9856147	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[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	esv2755185	chr3:105378310-105597310	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv508234	chr3:105549864-105565806	Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105483200-105555200	Weak transcription	Placenta	Placenta
2	chr3:105511400-105566400	Weak transcription	Aorta	Aorta
3	chr3:105528400-105553600	Weak transcription	Fetal Kidney	kidney
4	chr3:105532200-105563000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:105533600-105560600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr3:105533800-105570000	Weak transcription	Dnd41	blood
7	chr3:105534200-105566200	Weak transcription	Brain Germinal Matrix	brain
8	chr3:105535600-105553800	Weak transcription	Fetal Brain Male	brain
9	chr3:105539400-105551600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr3:105540800-105569600	Weak transcription	Fetal Thymus	thymus
11	chr3:105541000-105554400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr3:105541800-105553600	Weak transcription	Fetal Brain Female	brain
13	chr3:105542200-105553600	Weak transcription	Liver	Liver
14	chr3:105542200-105554000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr3:105542600-105555400	Weak transcription	Brain Angular Gyrus	brain
16	chr3:105542600-105566000	Weak transcription	Fetal Stomach	stomach
17	chr3:105542800-105554400	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr3:105543000-105555600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr3:105543200-105551600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr3:105543400-105555800	Weak transcription	HepG2	liver
21	chr3:105543400-105560800	Weak transcription	Fetal Muscle Trunk	muscle
22	chr3:105543400-105581200	Weak transcription	Gastric	stomach
23	chr3:105543600-105551000	Weak transcription	Primary hematopoietic stem cells	blood
24	chr3:105543600-105557200	Weak transcription	Fetal Intestine Large	intestine
25	chr3:105543800-105551400	Weak transcription	HSMMtube	muscle
26	chr3:105543800-105571000	Weak transcription	Lung	lung
27	chr3:105544000-105554400	Weak transcription	Fetal Lung	lung
28	chr3:105544200-105554400	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr3:105544200-105559200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr3:105544200-105584600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr3:105545400-105553000	Enhancers	Primary T helper naive cells from peripheral blood	blood
32	chr3:105545800-105551800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
33	chr3:105546000-105552400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr3:105546200-105552200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
35	chr3:105546400-105552200	Enhancers	Primary T helper cells fromperipheralblood	blood
36	chr3:105546600-105551200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr3:105546600-105586200	Weak transcription	Esophagus	oesophagus
38	chr3:105546800-105553800	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr3:105546800-105560800	Weak transcription	Fetal Muscle Leg	muscle
40	chr3:105547000-105551000	Weak transcription	Brain Hippocampus Middle	brain
41	chr3:105547200-105551400	Weak transcription	Fetal Heart	heart
42	chr3:105547200-105551600	Weak transcription	HUES48 Cell Line	embryonic stem cell
43	chr3:105547200-105553600	Weak transcription	Hela-S3	cervix
44	chr3:105547200-105554600	Weak transcription	Duodenum Mucosa	Duodenum
45	chr3:105547200-105554800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr3:105547200-105554800	Weak transcription	Ovary	ovary
47	chr3:105547200-105555000	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr3:105547200-105557400	Weak transcription	Fetal Intestine Small	intestine
49	chr3:105547400-105554400	Weak transcription	NH-A	brain
50	chr3:105547400-105557200	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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