Variant report

Variant	rs28664622
Chromosome Location	chr3:156966068-156966069
allele	A/G
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:18)

rs_ID	r²[population]
rs10440022	0.85[AFR][1000 genomes]
rs12696046	0.89[AFR][1000 genomes]
rs13060940	0.89[AFR][1000 genomes]
rs13076599	0.89[AFR][1000 genomes]
rs13090731	0.89[AFR][1000 genomes]
rs13319093	0.89[AFR][1000 genomes]
rs13326278	0.89[AFR][1000 genomes]
rs28513929	0.92[AFR][1000 genomes]
rs28814066	0.96[AFR][1000 genomes]
rs34154019	0.92[AFR][1000 genomes]
rs34300533	0.89[AFR][1000 genomes]
rs3749215	0.89[AFR][1000 genomes]
rs71310497	0.92[AFR][1000 genomes]
rs9812766	0.89[AFR][1000 genomes]
rs9829650	0.89[AFR][1000 genomes]
rs9856588	0.92[AFR][1000 genomes]
rs9866141	0.92[AFR][1000 genomes]
rs9868982	0.89[AFR][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	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv877687	chr3:156924793-157044184	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156955200-156966600	Weak transcription	Pancreas	Pancrea
2	chr3:156957600-156966600	Weak transcription	Lung	lung
3	chr3:156958400-156971200	Weak transcription	Primary B cells from cord blood	blood
4	chr3:156963400-156966600	Enhancers	Brain Angular Gyrus	brain
5	chr3:156964200-156966600	Enhancers	Brain Substantia Nigra	brain
6	chr3:156964400-156966400	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr3:156964600-156966600	Enhancers	Brain Cingulate Gyrus	brain
8	chr3:156964600-156966600	Enhancers	Brain Hippocampus Middle	brain
9	chr3:156964800-156966200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr3:156964800-156966600	Enhancers	Colon Smooth Muscle	Colon
11	chr3:156964800-156966600	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr3:156964800-156966800	Enhancers	Primary hematopoietic stem cells	blood
13	chr3:156964800-156967000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr3:156964800-156967200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr3:156964800-156968600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr3:156965000-156966200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:156965000-156966200	Enhancers	Muscle Satellite Cultured Cells	--
18	chr3:156965000-156966400	Enhancers	Brain Anterior Caudate	brain
19	chr3:156965000-156966400	Enhancers	NHDF-Ad	bronchial
20	chr3:156965000-156966600	Enhancers	Hela-S3	cervix
21	chr3:156965000-156966600	Enhancers	HUVEC	blood vessel
22	chr3:156965000-156967000	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr3:156965000-156967200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr3:156965000-156967200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr3:156965000-156967600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr3:156965000-156968600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr3:156965200-156966200	Enhancers	Stomach Smooth Muscle	stomach
28	chr3:156965200-156966400	Weak transcription	Ovary	ovary
29	chr3:156965200-156966600	Enhancers	Fetal Heart	heart
30	chr3:156965200-156966600	Weak transcription	Fetal Stomach	stomach
31	chr3:156965200-156966600	Enhancers	Rectal Smooth Muscle	rectum
32	chr3:156965200-156966600	Enhancers	HSMMtube	muscle
33	chr3:156965200-156967200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr3:156965200-156967200	Enhancers	HSMM	muscle
35	chr3:156965200-156967200	Enhancers	Osteobl	bone
36	chr3:156965200-156967400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr3:156965200-156968200	Enhancers	Cortex derived primary cultured neurospheres	brain
38	chr3:156965200-156968600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr3:156965400-156966600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr3:156965400-156966600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr3:156965400-156966600	Weak transcription	K562	blood
42	chr3:156965400-156967000	Enhancers	NHLF	lung
43	chr3:156965600-156966800	Weak transcription	Right Atrium	heart
44	chr3:156965600-156968000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr3:156965800-156966200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr3:156965800-156966200	Enhancers	NH-A	brain
47	chr3:156965800-156966600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr3:156965800-156966600	Enhancers	Skeletal Muscle Female	skeletal muscle
49	chr3:156965800-156966800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr3:156965800-156967000	Enhancers	NHEK	skin

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