Variant report

Variant	rs13088093
Chromosome Location	chr3:135838598-135838599
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10512987	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6774226	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6774621	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6784219	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6787409	0.93[EUR][1000 genomes]
rs73222236	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9837224	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9875207	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[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	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135803400-135848000	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:135803600-135860600	Weak transcription	Esophagus	oesophagus
3	chr3:135803800-135860000	Weak transcription	NHLF	lung
4	chr3:135805400-135843800	Weak transcription	NHEK	skin
5	chr3:135810400-135842200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr3:135810400-135843000	Weak transcription	Gastric	stomach
7	chr3:135810400-135848000	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr3:135810400-135855400	Weak transcription	Osteobl	bone
9	chr3:135810400-135859800	Weak transcription	NHDF-Ad	bronchial
10	chr3:135810400-135861000	Weak transcription	Rectal Smooth Muscle	rectum
11	chr3:135822000-135861000	Weak transcription	Ovary	ovary
12	chr3:135822800-135870000	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr3:135823200-135868400	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr3:135824400-135845000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr3:135824400-135854400	Weak transcription	Pancreas	Pancrea
16	chr3:135825200-135846800	Weak transcription	Colon Smooth Muscle	Colon
17	chr3:135825400-135845800	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr3:135829200-135844600	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr3:135829400-135838600	Weak transcription	Brain Hippocampus Middle	brain
20	chr3:135829600-135845600	Weak transcription	Brain Substantia Nigra	brain
21	chr3:135829600-135846800	Weak transcription	Brain Anterior Caudate	brain
22	chr3:135830000-135845000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr3:135831400-135869400	Weak transcription	Psoas Muscle	Psoas
24	chr3:135831400-135874800	Weak transcription	Fetal Brain Male	brain
25	chr3:135831800-135859800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr3:135832400-135844800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr3:135832600-135844800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr3:135833000-135853200	Weak transcription	Fetal Heart	heart
29	chr3:135833000-135859800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr3:135833000-135860600	Weak transcription	Right Ventricle	heart
31	chr3:135833200-135845000	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr3:135833200-135860600	Weak transcription	HSMMtube	muscle
33	chr3:135833600-135839800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr3:135833600-135839800	Weak transcription	Stomach Smooth Muscle	stomach
35	chr3:135833600-135843000	Weak transcription	Aorta	Aorta
36	chr3:135833600-135845000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr3:135833800-135839400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr3:135833800-135841000	Weak transcription	HSMM	muscle
39	chr3:135833800-135844200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr3:135833800-135844800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr3:135833800-135845000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr3:135833800-135845000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr3:135833800-135845200	Weak transcription	Fetal Lung	lung
44	chr3:135834000-135838600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr3:135834000-135839400	Weak transcription	Dnd41	blood
46	chr3:135834000-135843000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr3:135834000-135843000	Weak transcription	Fetal Stomach	stomach
48	chr3:135834000-135844400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr3:135834000-135844800	Weak transcription	Fetal Muscle Leg	muscle
50	chr3:135834000-135845000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links