Variant report

Variant	rs35530532
Chromosome Location	chr3:28316076-28316077
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11706332	0.86[ASN][1000 genomes]
rs11708424	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12107256	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13083544	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13085245	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13090296	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13092618	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13093242	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13099152	0.89[ASN][1000 genomes]
rs1599826	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1606386	0.90[ASN][1000 genomes]
rs1606388	0.85[ASN][1000 genomes]
rs1610238	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17021221	0.88[ASN][1000 genomes]
rs17021306	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17638742	0.89[ASN][1000 genomes]
rs17638782	0.89[ASN][1000 genomes]
rs17638991	0.88[ASN][1000 genomes]
rs17695765	0.85[ASN][1000 genomes]
rs2016948	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34017994	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34419916	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34541614	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34574968	0.88[ASN][1000 genomes]
rs34681294	0.86[ASN][1000 genomes]
rs34748842	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35217335	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35232922	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35439056	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35460328	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35496780	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35565264	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35575798	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35678778	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35736614	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs35768817	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35845822	0.89[ASN][1000 genomes]
rs35937120	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4522735	0.89[ASN][1000 genomes]
rs56946005	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62251105	0.88[ASN][1000 genomes]
rs62251108	0.85[ASN][1000 genomes]
rs62252069	0.89[ASN][1000 genomes]
rs66502736	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66716911	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67023418	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68097246	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71087683	0.89[ASN][1000 genomes]
rs7635383	0.90[ASN][1000 genomes]
rs7650831	0.84[ASN][1000 genomes]
rs952888	0.86[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	esv3328565	chr3:27991169-28915035	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv876649	chr3:28126595-28718454	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:28284000-28317200	Weak transcription	Gastric	stomach
2	chr3:28284400-28321800	Weak transcription	NHLF	lung
3	chr3:28287600-28317000	Weak transcription	Pancreas	Pancrea
4	chr3:28294800-28316400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:28295600-28318200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr3:28303000-28316800	Weak transcription	Right Ventricle	heart
7	chr3:28303400-28322200	Weak transcription	Small Intestine	intestine
8	chr3:28303600-28340600	Weak transcription	NHEK	skin
9	chr3:28303800-28320800	Weak transcription	Placenta	Placenta
10	chr3:28304200-28332400	Weak transcription	Rectal Smooth Muscle	rectum
11	chr3:28305600-28322600	Weak transcription	Osteobl	bone
12	chr3:28306200-28316600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr3:28306400-28332400	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr3:28306600-28335800	Weak transcription	Hela-S3	cervix
15	chr3:28307400-28317400	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr3:28307600-28317000	Weak transcription	Fetal Thymus	thymus
17	chr3:28309000-28336600	Weak transcription	HUVEC	blood vessel
18	chr3:28309400-28317000	Weak transcription	HSMM	muscle
19	chr3:28309600-28317000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr3:28310000-28317000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr3:28310400-28321200	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr3:28311200-28317200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr3:28311400-28319000	Weak transcription	Spleen	Spleen
24	chr3:28311600-28317000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr3:28311600-28317000	Weak transcription	Aorta	Aorta
26	chr3:28311600-28317000	Weak transcription	Esophagus	oesophagus
27	chr3:28311600-28319200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr3:28312600-28316800	ZNF genes & repeats	Fetal Lung	lung
29	chr3:28313400-28322800	Weak transcription	Colonic Mucosa	Colon
30	chr3:28313600-28316200	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr3:28313600-28316200	ZNF genes & repeats	Fetal Intestine Large	intestine
32	chr3:28313600-28316400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr3:28313800-28316200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
34	chr3:28313800-28316200	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
35	chr3:28313800-28316200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr3:28313800-28316600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr3:28313800-28316600	ZNF genes & repeats	Primary B cells from peripheral blood	blood
38	chr3:28313800-28317200	ZNF genes & repeats	GM12878-XiMat	blood
39	chr3:28314000-28316200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
40	chr3:28314200-28316600	ZNF genes & repeats	Primary T cells from cord blood	blood
41	chr3:28314200-28332400	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr3:28314400-28316800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr3:28314400-28316800	Weak transcription	Thymus	Thymus
44	chr3:28314400-28317000	Weak transcription	Lung	lung
45	chr3:28314400-28317600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr3:28314400-28318600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr3:28314400-28332400	Weak transcription	Ovary	ovary
48	chr3:28314400-28365400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr3:28314600-28316400	Weak transcription	Fetal Stomach	stomach
50	chr3:28314600-28316600	Weak transcription	Fetal Intestine Small	intestine

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