Variant report

Variant	rs16840521
Chromosome Location	chr3:133266231-133266232
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA2	chr3:133266155-133266530	HepG2	liver:	n/a	n/a
2	EP300	chr3:133266205-133266824	T-47D	breast:	n/a	n/a
3	FOXA1	chr3:133266154-133266539	T-47D	breast:	n/a	n/a
4	FOXA2	chr3:133266214-133266543	A549	lung:	n/a	n/a
5	TCF12	chr3:133266145-133266690	A549	lung:	n/a	n/a
6	GATA3	chr3:133266065-133266633	T-47D	breast:	n/a	n/a
7	SP1	chr3:133266152-133266482	HepG2	liver:	n/a	n/a
8	FOXA1	chr3:133266172-133266577	T-47D	breast:	n/a	n/a
9	FOXA1	chr3:133266180-133266524	HepG2	liver:	n/a	n/a
10	MYC	chr3:133266195-133266396	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000272832	TF binding region
ENSG00000250983	TF binding region
ENSG00000201827	TF binding region

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

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10935069	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12637437	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16840524	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2084003	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4425254	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56320905	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56381780	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56400108	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58407398	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58926483	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280428	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62280433	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280438	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280439	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62282383	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6439423	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs66488561	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66549971	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6789395	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6802296	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7429348	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7633418	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8180106	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs872134	0.89[AFR][1000 genomes]

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133260200-133268000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr3:133263400-133267400	Enhancers	Liver	Liver
3	chr3:133264000-133267200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:133264600-133266600	Weak transcription	GM12878-XiMat	blood
5	chr3:133264600-133267800	Enhancers	Placenta	Placenta
6	chr3:133265400-133267000	Enhancers	Fetal Muscle Trunk	muscle
7	chr3:133265400-133267200	Enhancers	Stomach Smooth Muscle	stomach
8	chr3:133265400-133267400	Enhancers	Fetal Heart	heart
9	chr3:133265600-133266400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr3:133265600-133266600	Enhancers	Osteobl	bone
11	chr3:133265600-133266800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:133265600-133267000	Enhancers	Ovary	ovary
13	chr3:133265600-133267200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr3:133265600-133267200	Enhancers	Adipose Nuclei	Adipose
15	chr3:133265600-133267200	Enhancers	Fetal Stomach	stomach
16	chr3:133265600-133267400	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr3:133265600-133267400	Enhancers	A549	lung
18	chr3:133265600-133267400	Enhancers	NHLF	lung
19	chr3:133265600-133267600	Enhancers	NHDF-Ad	bronchial
20	chr3:133265600-133267800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr3:133265600-133268000	Enhancers	Muscle Satellite Cultured Cells	--
22	chr3:133265800-133266600	Enhancers	HUES6 Cell Line	embryonic stem cell
23	chr3:133265800-133266800	Enhancers	Colonic Mucosa	Colon
24	chr3:133265800-133267200	Enhancers	H9 Cell Line	embryonic stem cell
25	chr3:133265800-133267200	Enhancers	Colon Smooth Muscle	Colon
26	chr3:133265800-133267200	Enhancers	Fetal Muscle Leg	muscle
27	chr3:133265800-133267200	Enhancers	NH-A	brain
28	chr3:133265800-133267400	Enhancers	HUES48 Cell Line	embryonic stem cell
29	chr3:133265800-133267400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr3:133265800-133267400	Enhancers	Placenta Amnion	Placenta Amnion
31	chr3:133265800-133267400	Enhancers	Stomach Mucosa	stomach
32	chr3:133265800-133267600	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr3:133265800-133267600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr3:133266000-133266400	Enhancers	Duodenum Mucosa	Duodenum
35	chr3:133266000-133266600	Enhancers	Fetal Lung	lung
36	chr3:133266000-133267000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr3:133266000-133267000	Enhancers	HMEC	breast
38	chr3:133266000-133267200	Enhancers	H1 Cell Line	embryonic stem cell
39	chr3:133266000-133267200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr3:133266000-133267200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr3:133266000-133267200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr3:133266000-133267200	Enhancers	Left Ventricle	heart
43	chr3:133266000-133267200	Enhancers	Pancreas	Pancrea
44	chr3:133266000-133267200	Enhancers	Sigmoid Colon	Sigmoid Colon
45	chr3:133266000-133267400	Enhancers	HUES64 Cell Line	embryonic stem cell
46	chr3:133266000-133267400	Enhancers	Rectal Mucosa Donor 31	rectum
47	chr3:133266200-133266400	Flanking Active TSS	HSMM	muscle
48	chr3:133266200-133266600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr3:133266200-133266600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr3:133266200-133266600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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