Variant report

Variant	rs57524201
Chromosome Location	chr6:128747696-128747697
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1416518	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17055834	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1890543	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2326682	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4351279	0.86[AFR][1000 genomes]
rs4895834	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6569526	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73589563	0.90[AFR][1000 genomes]
rs73589569	0.83[AFR][1000 genomes]
rs73589574	0.92[AFR][1000 genomes]
rs73589577	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7754771	0.94[AFR][1000 genomes]
rs7758826	0.90[AFR][1000 genomes]
rs8180639	0.86[AFR][1000 genomes]
rs9388633	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs946425	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs946426	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv886649	chr6:128399657-128808054	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	nsv830800	chr6:128710631-128878435	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128728800-128748000	Weak transcription	Ovary	ovary
2	chr6:128731000-128753400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr6:128732400-128752400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr6:128734200-128748400	Weak transcription	Gastric	stomach
5	chr6:128739600-128748400	Weak transcription	Psoas Muscle	Psoas
6	chr6:128739600-128748400	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr6:128739600-128755600	Weak transcription	Osteobl	bone
8	chr6:128739800-128748400	Weak transcription	Left Ventricle	heart
9	chr6:128739800-128762600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr6:128740000-128752800	Weak transcription	NH-A	brain
11	chr6:128740000-128756000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr6:128740800-128777000	Weak transcription	Fetal Intestine Small	intestine
13	chr6:128741800-128753400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr6:128742000-128748200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:128743200-128748400	Weak transcription	Pancreas	Pancrea
16	chr6:128743200-128748400	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr6:128743600-128747800	Weak transcription	Fetal Lung	lung
18	chr6:128743600-128752200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:128743600-128755200	Weak transcription	Brain Substantia Nigra	brain
20	chr6:128743600-128759400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr6:128743800-128747800	Weak transcription	Brain Anterior Caudate	brain
22	chr6:128743800-128748200	Weak transcription	Brain Cingulate Gyrus	brain
23	chr6:128743800-128753400	Weak transcription	NHEK	skin
24	chr6:128743800-128756000	Weak transcription	Fetal Intestine Large	intestine
25	chr6:128744200-128748000	Weak transcription	Brain Hippocampus Middle	brain
26	chr6:128744200-128754200	Weak transcription	Brain Angular Gyrus	brain
27	chr6:128744400-128755200	Weak transcription	HepG2	liver
28	chr6:128744600-128758800	Weak transcription	HSMM	muscle
29	chr6:128744800-128748200	Weak transcription	Right Atrium	heart
30	chr6:128744800-128748200	Weak transcription	HSMMtube	muscle
31	chr6:128746800-128747800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr6:128747000-128748200	Weak transcription	Aorta	Aorta
33	chr6:128747000-128748400	Weak transcription	Right Ventricle	heart
34	chr6:128747000-128751000	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr6:128747400-128747800	Enhancers	Duodenum Smooth Muscle	Duodenum
36	chr6:128747400-128753000	Weak transcription	NHDF-Ad	bronchial
37	chr6:128747600-128748800	Enhancers	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links