Variant report

Variant	rs62255572
Chromosome Location	chr3:105593706-105593707
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs12054270	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12493071	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1443100	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1503923	0.96[AMR][1000 genomes]
rs16851512	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16851553	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16851673	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16851705	1.00[AMR][1000 genomes]
rs16851706	1.00[AMR][1000 genomes]
rs16851707	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1814078	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1867194	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2028598	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2028599	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2055558	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2055559	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2120104	0.86[ASN][1000 genomes]
rs2301028	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2301034	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2301035	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3213928	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34360428	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35909361	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3772517	0.88[ASN][1000 genomes]
rs3772522	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3772525	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3821490	0.87[ASN][1000 genomes]
rs4431143	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4469007	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4894956	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62255570	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255571	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255573	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255575	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256353	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62258160	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62261460	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62261462	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62261487	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62261489	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62261491	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62261492	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62261493	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62261495	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62261496	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62261497	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62261498	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62261499	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62261538	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62261539	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62263056	0.86[ASN][1000 genomes]
rs62263057	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62263059	0.86[ASN][1000 genomes]
rs62263169	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62263170	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62264260	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6809776	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7619706	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7628896	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7631219	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7641527	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7650046	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs964173	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9657903	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9657924	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs971109	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9849559	0.86[ASN][1000 genomes]
rs9856147	0.93[EUR][1000 genomes];0.96[ASN][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	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	nsv1008564	chr3:105554580-105643435	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1008876	chr3:105554580-105645373	Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv877312	chr3:105560638-105916506	Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers 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

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105589000-105595200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr3:105589000-105601200	Weak transcription	Aorta	Aorta
3	chr3:105589000-105601200	Weak transcription	Thymus	Thymus
4	chr3:105589000-105601200	Weak transcription	NH-A	brain
5	chr3:105589200-105601200	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:105589400-105594400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr3:105589400-105596400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr3:105589400-105596800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr3:105589600-105594600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr3:105589800-105595000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr3:105589800-105595400	Weak transcription	Primary T cells from cord blood	blood
12	chr3:105589800-105595800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr3:105589800-105595800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr3:105590000-105595600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr3:105590000-105595800	Weak transcription	Primary B cells from cord blood	blood
16	chr3:105590200-105595200	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr3:105590200-105595200	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr3:105590400-105595800	Weak transcription	Fetal Kidney	kidney
19	chr3:105590600-105595200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr3:105590800-105595000	Weak transcription	Fetal Intestine Large	intestine
21	chr3:105590800-105595000	Weak transcription	Small Intestine	intestine
22	chr3:105590800-105595800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr3:105590800-105596000	Weak transcription	NHDF-Ad	bronchial
24	chr3:105590800-105597000	Weak transcription	Fetal Lung	lung
25	chr3:105591000-105595000	Weak transcription	Fetal Intestine Small	intestine
26	chr3:105591000-105595000	Weak transcription	Stomach Mucosa	stomach

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