Variant report

Variant	rs56141979
Chromosome Location	chr10:96064819-96064820
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12766693	0.96[ASN][1000 genomes]
rs12781422	0.96[ASN][1000 genomes]
rs28478908	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35446195	0.88[ASN][1000 genomes]
rs3758524	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3758528	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55666785	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55980465	0.88[ASN][1000 genomes]
rs56041302	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56041757	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56240705	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56376834	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56400969	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs730809	0.93[EUR][1000 genomes]
rs7914997	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036676	chr10:95851376-96103876	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv831946	chr10:96055190-96226438	Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	esv1819509	chr10:96064300-96361776	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96015000-96070200	Weak transcription	Fetal Brain Female	brain
2	chr10:96031800-96121000	Weak transcription	Stomach Mucosa	stomach
3	chr10:96035600-96066800	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr10:96036000-96081600	Weak transcription	Left Ventricle	heart
5	chr10:96037800-96069000	Weak transcription	Gastric	stomach
6	chr10:96040200-96066200	Weak transcription	Pancreas	Pancrea
7	chr10:96043600-96121000	Weak transcription	Psoas Muscle	Psoas
8	chr10:96046200-96066200	Weak transcription	Right Atrium	heart
9	chr10:96047800-96068200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr10:96048800-96074800	Weak transcription	Placenta	Placenta
11	chr10:96049400-96081600	Weak transcription	Spleen	Spleen
12	chr10:96052800-96073600	Weak transcription	Ovary	ovary
13	chr10:96053000-96068200	Weak transcription	Fetal Brain Male	brain
14	chr10:96053000-96083200	Weak transcription	Fetal Kidney	kidney
15	chr10:96053200-96081600	Weak transcription	Brain Substantia Nigra	brain
16	chr10:96053400-96066200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr10:96053400-96069000	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr10:96053400-96073000	Weak transcription	Fetal Lung	lung
19	chr10:96055200-96074600	Strong transcription	Fetal Muscle Leg	muscle
20	chr10:96057200-96066800	Weak transcription	Rectal Smooth Muscle	rectum
21	chr10:96059000-96065200	Weak transcription	Aorta	Aorta
22	chr10:96059000-96074800	Weak transcription	Adipose Nuclei	Adipose
23	chr10:96059400-96083200	Weak transcription	Brain Anterior Caudate	brain
24	chr10:96059600-96066600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr10:96059600-96081600	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr10:96059800-96066600	Weak transcription	A549	lung
27	chr10:96059800-96067800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr10:96060000-96074800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr10:96060200-96066400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr10:96060400-96066200	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr10:96060400-96066200	Weak transcription	Duodenum Mucosa	Duodenum
32	chr10:96062600-96065200	Strong transcription	Rectal Mucosa Donor 29	rectum
33	chr10:96063200-96068200	Weak transcription	Colonic Mucosa	Colon
34	chr10:96063600-96076600	Strong transcription	Rectal Mucosa Donor 31	rectum
35	chr10:96064200-96065200	Strong transcription	Fetal Muscle Trunk	muscle
36	chr10:96064200-96070600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr10:96064400-96068600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr10:96064400-96069400	Strong transcription	Fetal Intestine Large	intestine
39	chr10:96064400-96073800	Strong transcription	Fetal Stomach	stomach
40	chr10:96064600-96069000	Weak transcription	HepG2	liver
41	chr10:96064600-96069800	Strong transcription	Fetal Intestine Small	intestine
42	chr10:96064800-96070000	Weak transcription	Liver	Liver
43	chr10:96064800-96071600	Strong transcription	Stomach Smooth Muscle	stomach
44	chr10:96064800-96072600	Strong transcription	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links