Variant report

Variant	rs55764298
Chromosome Location	chr3:43119790-43119791
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1072822	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12233614	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12485530	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12485578	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12487785	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12497427	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12497602	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1523125	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1523126	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1566422	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17391761	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17470089	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1815070	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1949583	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1949584	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs488069	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55819365	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55945909	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55954171	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs604033	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6796161	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73074962	0.82[EUR][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	nsv460522	chr3:42967597-43175207	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv590149	chr3:42967597-43175207	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:43093400-43120200	Weak transcription	Brain Cingulate Gyrus	brain
2	chr3:43096200-43121200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:43100200-43120200	Weak transcription	Brain Angular Gyrus	brain
4	chr3:43101600-43121000	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:43102000-43121000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr3:43103000-43120000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr3:43103200-43120600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr3:43104800-43120800	Weak transcription	Gastric	stomach
9	chr3:43106400-43120400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr3:43112200-43121200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr3:43112800-43120600	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr3:43113000-43120800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr3:43115000-43120400	Weak transcription	Fetal Intestine Small	intestine
14	chr3:43116000-43120800	Weak transcription	Dnd41	blood
15	chr3:43116000-43121000	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr3:43116000-43121000	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr3:43117000-43119800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr3:43117000-43120200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr3:43117000-43121200	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr3:43117200-43120200	Weak transcription	Fetal Thymus	thymus
21	chr3:43117200-43120800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr3:43117200-43121000	Weak transcription	Right Ventricle	heart
23	chr3:43117400-43121000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr3:43117600-43120000	Weak transcription	Left Ventricle	heart
25	chr3:43117600-43120800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr3:43117600-43121000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr3:43117600-43121000	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr3:43117800-43120200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr3:43117800-43120400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr3:43117800-43121000	Weak transcription	Esophagus	oesophagus
31	chr3:43118000-43120800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr3:43118000-43121200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr3:43118000-43121200	Weak transcription	Rectal Smooth Muscle	rectum
34	chr3:43118200-43120000	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr3:43118200-43120800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr3:43118200-43121000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr3:43118200-43121000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr3:43118200-43121000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr3:43118200-43124800	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr3:43118200-43128000	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr3:43118400-43120200	Weak transcription	Adipose Nuclei	Adipose
42	chr3:43118400-43120600	Weak transcription	Liver	Liver
43	chr3:43118400-43120800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr3:43118400-43121000	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr3:43118400-43121200	Weak transcription	Fetal Lung	lung
46	chr3:43118400-43121200	Weak transcription	Pancreas	Pancrea
47	chr3:43118400-43124400	Strong transcription	Fetal Muscle Leg	muscle
48	chr3:43118600-43120800	Weak transcription	HepG2	liver
49	chr3:43118600-43124000	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr3:43118600-43127800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links