Variant report

Variant	rs16929904
Chromosome Location	chr12:26169269-26169270
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10505989	0.90[JPT][hapmap];0.83[AMR][1000 genomes]
rs10842654	0.82[CEU][hapmap];0.84[JPT][hapmap];0.85[AMR][1000 genomes]
rs12425863	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12426668	0.83[CEU][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1495649	1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1533244	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16929780	1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16929815	0.85[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16929860	0.82[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16929894	0.83[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929895	0.83[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929970	0.91[JPT][hapmap];0.83[AMR][1000 genomes]
rs16929998	0.82[CEU][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2137550	0.91[JPT][hapmap]
rs2343200	0.86[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2669565	0.91[JPT][hapmap]
rs2669566	0.91[JPT][hapmap]
rs2669568	0.82[JPT][hapmap]
rs2729626	0.91[JPT][hapmap]
rs2729638	0.81[JPT][hapmap]
rs2729643	0.82[JPT][hapmap]
rs2729644	0.82[JPT][hapmap]
rs2729649	0.82[JPT][hapmap]
rs4963643	0.82[AMR][1000 genomes]
rs4963644	1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4963947	1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4963952	0.91[JPT][hapmap]
rs57082706	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57791860	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61123975	0.83[AMR][1000 genomes]
rs6487526	0.82[JPT][hapmap]
rs73074872	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs73074898	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73077103	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73077131	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73077152	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73077161	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73077176	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73077179	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73079010	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079021	0.86[AMR][1000 genomes]
rs73079023	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73079024	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73079069	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73080925	0.83[AMR][1000 genomes]
rs7961722	0.91[JPT][hapmap]
rs9804876	0.82[CEU][hapmap];0.84[JPT][hapmap]

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	nsv898931	chr12:26123345-26192936	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:26160600-26170400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr12:26160600-26170600	Weak transcription	Fetal Intestine Small	intestine
3	chr12:26160600-26171600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr12:26163600-26170400	Weak transcription	Pancreas	Pancrea
5	chr12:26164200-26170400	Weak transcription	Brain Angular Gyrus	brain
6	chr12:26164400-26170400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr12:26164600-26170200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr12:26164600-26170400	Weak transcription	Brain Anterior Caudate	brain
9	chr12:26164600-26171600	Weak transcription	NH-A	brain
10	chr12:26164800-26170400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr12:26164800-26170400	Weak transcription	Adipose Nuclei	Adipose
12	chr12:26164800-26170400	Weak transcription	Aorta	Aorta
13	chr12:26164800-26170400	Weak transcription	Left Ventricle	heart
14	chr12:26164800-26170400	Weak transcription	Lung	lung
15	chr12:26164800-26170400	Weak transcription	Ovary	ovary
16	chr12:26164800-26170400	Weak transcription	Psoas Muscle	Psoas
17	chr12:26164800-26170400	Weak transcription	Stomach Smooth Muscle	stomach
18	chr12:26164800-26170400	Weak transcription	Hela-S3	cervix
19	chr12:26164800-26170400	Weak transcription	HSMM	muscle
20	chr12:26164800-26170400	Weak transcription	NHEK	skin
21	chr12:26164800-26170600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr12:26164800-26173200	Weak transcription	HMEC	breast
23	chr12:26165000-26169400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr12:26165000-26171600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr12:26165200-26171400	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr12:26166200-26170400	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr12:26167200-26170400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr12:26167200-26170400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr12:26167200-26170400	Weak transcription	Brain Substantia Nigra	brain
30	chr12:26167200-26170400	Weak transcription	Gastric	stomach
31	chr12:26167200-26170400	Weak transcription	Right Atrium	heart
32	chr12:26167200-26174200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr12:26167400-26169400	Weak transcription	Osteobl	bone
34	chr12:26167400-26170400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr12:26167400-26170400	Weak transcription	Brain Cingulate Gyrus	brain
36	chr12:26167400-26170400	Weak transcription	Colon Smooth Muscle	Colon
37	chr12:26167400-26170400	Weak transcription	Fetal Heart	heart
38	chr12:26167400-26170400	Weak transcription	Right Ventricle	heart
39	chr12:26167400-26170400	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr12:26167400-26170400	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr12:26167400-26171600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr12:26167400-26180600	Weak transcription	Rectal Smooth Muscle	rectum
43	chr12:26168200-26169400	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr12:26168200-26169400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr12:26168200-26169800	Enhancers	iPS-15b Cell Line	embryonic stem cell
46	chr12:26168200-26169800	Enhancers	iPS-18 Cell Line	embryonic stem cell
47	chr12:26168200-26171000	Enhancers	HUES48 Cell Line	embryonic stem cell
48	chr12:26168200-26171000	Enhancers	HUES64 Cell Line	embryonic stem cell
49	chr12:26168400-26169400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
50	chr12:26168400-26169600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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