Variant report

Variant	rs7543977
Chromosome Location	chr1:95290727-95290728
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10782992	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10782993	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10874894	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1146458	1.00[ASN][1000 genomes]
rs2893277	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3860339	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3860345	1.00[ASN][1000 genomes]
rs3860348	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3860349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3904553	1.00[ASN][1000 genomes]
rs3904554	1.00[ASN][1000 genomes]
rs3916208	1.00[ASN][1000 genomes]
rs3916432	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3936924	0.83[AMR][1000 genomes]
rs4847359	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6541370	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6541372	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6665321	1.00[ASN][1000 genomes]
rs6702030	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7528707	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9432373	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001587	chr1:95027691-95318680	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:95286400-95293400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:95286400-95295800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr1:95286400-95295800	Weak transcription	Right Ventricle	heart
4	chr1:95286400-95298800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:95286600-95292400	Weak transcription	Right Atrium	heart
6	chr1:95286600-95296400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr1:95286600-95311800	Weak transcription	Placenta	Placenta
8	chr1:95286600-95319800	Weak transcription	Lung	lung
9	chr1:95287000-95292800	Weak transcription	Brain Hippocampus Middle	brain
10	chr1:95287000-95293000	Weak transcription	HMEC	breast
11	chr1:95287000-95293400	Weak transcription	NHEK	skin
12	chr1:95287000-95306200	Weak transcription	Aorta	Aorta
13	chr1:95287000-95308200	Weak transcription	Brain Substantia Nigra	brain
14	chr1:95287000-95319800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr1:95287200-95292800	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr1:95287200-95302400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr1:95287600-95292000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr1:95287600-95293600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:95287600-95296600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr1:95287800-95292400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr1:95287800-95292400	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr1:95287800-95293800	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr1:95287800-95299000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr1:95287800-95320200	Weak transcription	Rectal Smooth Muscle	rectum
25	chr1:95288000-95293000	Weak transcription	Liver	Liver
26	chr1:95288000-95298600	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr1:95288400-95292200	Weak transcription	Colonic Mucosa	Colon
28	chr1:95288400-95312400	Weak transcription	Fetal Muscle Leg	muscle
29	chr1:95288800-95290800	Genic enhancers	Fetal Intestine Small	intestine
30	chr1:95289000-95291400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr1:95289000-95293800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr1:95289000-95306400	Weak transcription	Fetal Kidney	kidney
33	chr1:95289200-95314800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr1:95289200-95318600	Weak transcription	HSMMtube	muscle
35	chr1:95289600-95293000	Weak transcription	Stomach Mucosa	stomach
36	chr1:95290000-95290800	Genic enhancers	Pancreas	Pancrea
37	chr1:95290200-95291800	Weak transcription	Gastric	stomach
38	chr1:95290200-95292400	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr1:95290400-95292400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr1:95290400-95293400	Strong transcription	HepG2	liver
41	chr1:95290400-95298400	Strong transcription	Fetal Intestine Large	intestine
42	chr1:95290600-95290800	Enhancers	H1 Cell Line	embryonic stem cell
43	chr1:95290600-95290800	ZNF genes & repeats	Esophagus	oesophagus
44	chr1:95290600-95290800	Genic enhancers	Rectal Mucosa Donor 31	rectum
45	chr1:95290600-95291200	Strong transcription	Fetal Stomach	stomach
46	chr1:95290600-95295600	Strong transcription	Duodenum Mucosa	Duodenum
47	chr1:95290600-95297200	Strong transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links