Variant report

Variant	rs9840812
Chromosome Location	chr3:135843162-135843163
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10935177	1.00[JPT][hapmap]
rs1153877	0.86[JPT][hapmap]
rs1154988	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs12330635	0.89[CHB][hapmap]
rs1278493	1.00[JPT][hapmap]
rs1279086	0.86[JPT][hapmap]
rs1279425	0.89[CHB][hapmap];0.86[JPT][hapmap]
rs1279831	1.00[JPT][hapmap]
rs1279840	0.88[CHB][hapmap];0.86[JPT][hapmap]
rs1711171	0.88[CHB][hapmap];0.86[JPT][hapmap]
rs34330586	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34894639	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3755636	0.89[CHB][hapmap];0.86[JPT][hapmap]
rs3772390	1.00[CHB][hapmap]
rs3957816	1.00[JPT][hapmap]
rs4431046	0.84[EUR][1000 genomes]
rs4678322	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4678361	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4678428	0.88[CHB][hapmap];0.86[JPT][hapmap]
rs518972	0.86[JPT][hapmap]
rs548288	0.88[CHB][hapmap];0.86[JPT][hapmap]
rs556788	0.86[JPT][hapmap]
rs576771	0.81[JPT][hapmap]
rs589092	0.86[JPT][hapmap]
rs606725	0.88[CHB][hapmap];0.86[JPT][hapmap]
rs61791721	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61791757	0.87[EUR][1000 genomes]
rs645040	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs650326	0.86[JPT][hapmap]
rs661739	1.00[JPT][hapmap]
rs6779146	0.88[EUR][1000 genomes]
rs684773	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs687339	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs7372313	1.00[JPT][hapmap]
rs895894	1.00[JPT][hapmap]
rs9810089	0.86[JPT][hapmap]
rs9811753	0.85[JPT][hapmap]
rs9845457	1.00[JPT][hapmap]
rs9848883	0.88[CHB][hapmap]
rs9856769	0.88[CHB][hapmap]
rs9865841	0.94[EUR][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:60 , 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	chr3:135810400-135848000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:135810400-135855400	Weak transcription	Osteobl	bone
7	chr3:135810400-135859800	Weak transcription	NHDF-Ad	bronchial
8	chr3:135810400-135861000	Weak transcription	Rectal Smooth Muscle	rectum
9	chr3:135822000-135861000	Weak transcription	Ovary	ovary
10	chr3:135822800-135870000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr3:135823200-135868400	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr3:135824400-135845000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr3:135824400-135854400	Weak transcription	Pancreas	Pancrea
14	chr3:135825200-135846800	Weak transcription	Colon Smooth Muscle	Colon
15	chr3:135825400-135845800	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr3:135829200-135844600	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr3:135829600-135845600	Weak transcription	Brain Substantia Nigra	brain
18	chr3:135829600-135846800	Weak transcription	Brain Anterior Caudate	brain
19	chr3:135830000-135845000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:135831400-135869400	Weak transcription	Psoas Muscle	Psoas
21	chr3:135831400-135874800	Weak transcription	Fetal Brain Male	brain
22	chr3:135831800-135859800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr3:135832400-135844800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr3:135832600-135844800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr3:135833000-135853200	Weak transcription	Fetal Heart	heart
26	chr3:135833000-135859800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:135833000-135860600	Weak transcription	Right Ventricle	heart
28	chr3:135833200-135845000	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr3:135833200-135860600	Weak transcription	HSMMtube	muscle
30	chr3:135833600-135845000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr3:135833800-135844200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr3:135833800-135844800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr3:135833800-135845000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr3:135833800-135845000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr3:135833800-135845200	Weak transcription	Fetal Lung	lung
36	chr3:135834000-135844400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr3:135834000-135844800	Weak transcription	Fetal Muscle Leg	muscle
38	chr3:135834000-135845000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr3:135834200-135844400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr3:135834200-135846400	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr3:135834400-135844000	Weak transcription	Fetal Muscle Trunk	muscle
42	chr3:135834400-135844800	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr3:135834800-135845200	Weak transcription	Left Ventricle	heart
44	chr3:135838800-135845000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr3:135839000-135845000	Weak transcription	Brain Hippocampus Middle	brain
46	chr3:135839200-135843800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr3:135839400-135844800	Weak transcription	Brain Germinal Matrix	brain
48	chr3:135839600-135844800	Weak transcription	Fetal Brain Female	brain
49	chr3:135839800-135844200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr3:135840400-135844800	Weak transcription	Stomach Smooth Muscle	stomach

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