Variant report

Variant	rs3828923
Chromosome Location	chr6:29590715-29590716
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:29578000..29583607-chr6:29584816..29592316,14	K562	blood:

Variant related genes	Relation type
ENSG00000204681	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs12525400	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12528017	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17178028	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2267635	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28893512	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28986291	0.80[AMR][1000 genomes]
rs28986295	0.86[EUR][1000 genomes]
rs28986296	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28986299	0.91[EUR][1000 genomes]
rs28986301	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28986303	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28986306	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28986307	0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs28986308	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29242	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29255	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3025645	0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3025646	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3025649	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs362521	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs41286283	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs41291762	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs41291766	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs715044	0.84[AMR][1000 genomes];0.92[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	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29566400-29595200	Weak transcription	Right Atrium	heart
2	chr6:29567600-29592400	Strong transcription	Fetal Stomach	stomach
3	chr6:29567600-29595400	Weak transcription	A549	lung
4	chr6:29568600-29595200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:29569000-29592400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:29569200-29592200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:29569400-29592000	Strong transcription	Stomach Smooth Muscle	stomach
8	chr6:29569400-29595600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr6:29572200-29595600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr6:29572400-29592000	Strong transcription	Fetal Brain Female	brain
11	chr6:29572400-29593000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr6:29573000-29591000	Weak transcription	Duodenum Mucosa	Duodenum
13	chr6:29574400-29595400	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr6:29574800-29595000	Weak transcription	Pancreas	Pancrea
15	chr6:29575200-29590800	Weak transcription	Primary T cells from cord blood	blood
16	chr6:29575400-29591600	Weak transcription	Colonic Mucosa	Colon
17	chr6:29577000-29591600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr6:29577600-29595400	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr6:29578800-29595200	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr6:29580400-29592200	Strong transcription	Muscle Satellite Cultured Cells	--
21	chr6:29581200-29591600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr6:29581800-29596000	Weak transcription	Fetal Heart	heart
23	chr6:29582600-29595400	Weak transcription	Primary hematopoietic stem cells	blood
24	chr6:29583800-29592200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr6:29585400-29591400	Strong transcription	Placenta Amnion	Placenta Amnion
26	chr6:29585400-29591600	Strong transcription	K562	blood
27	chr6:29585400-29591800	Strong transcription	Fetal Muscle Trunk	muscle
28	chr6:29585400-29591800	Strong transcription	NH-A	brain
29	chr6:29585400-29591800	Strong transcription	NHLF	lung
30	chr6:29585400-29592000	Strong transcription	Adipose Nuclei	Adipose
31	chr6:29585400-29592200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr6:29585400-29592200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr6:29585400-29592400	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr6:29585600-29591800	Strong transcription	Primary B cells from peripheral blood	blood
35	chr6:29585600-29591800	Strong transcription	Duodenum Smooth Muscle	Duodenum
36	chr6:29585600-29591800	Strong transcription	Fetal Lung	lung
37	chr6:29585800-29591000	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr6:29585800-29591800	Strong transcription	HMEC	breast
39	chr6:29585800-29592200	Strong transcription	Fetal Muscle Leg	muscle
40	chr6:29585800-29592800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr6:29585800-29592800	Strong transcription	NHEK	skin
42	chr6:29586000-29592600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr6:29586400-29592400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr6:29586400-29592800	Weak transcription	Fetal Brain Male	brain
45	chr6:29586600-29591600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr6:29586600-29591800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr6:29586600-29591800	Strong transcription	Spleen	Spleen
48	chr6:29586800-29591200	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr6:29587000-29590800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr6:29587000-29591600	Strong transcription	Gastric	stomach

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