Variant report

Variant	rs9877962
Chromosome Location	chr3:56666726-56666727
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	POLR2A	chr3:56666467-56668756	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:56666598..56668908-chr3:56715764..56717337,2	MCF-7	breast:

Variant related genes	Relation type
FAM208A	TF binding region
ENSG00000163946	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11130524	0.85[YRI][hapmap];0.84[AFR][1000 genomes]
rs13316272	1.00[AMR][1000 genomes]
rs13320990	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13326525	0.85[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28493474	0.84[AFR][1000 genomes]
rs28605592	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28846202	0.84[AFR][1000 genomes]
rs9817151	1.00[AMR][1000 genomes]
rs9821740	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9824415	1.00[AMR][1000 genomes]
rs9827937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9846575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9848723	0.85[YRI][hapmap];0.84[AFR][1000 genomes]
rs9853548	0.82[YRI][hapmap];0.97[AFR][1000 genomes]
rs9861624	1.00[AMR][1000 genomes]
rs9864263	1.00[AMR][1000 genomes]
rs9867688	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9873327	1.00[AFR][1000 genomes]
rs9883323	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9985426	1.00[AMR][1000 genomes]

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56640800-56695400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:56642800-56713400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:56644400-56686400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:56644600-56668600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr3:56644800-56669800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr3:56644800-56708200	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr3:56645400-56667200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:56645400-56705200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr3:56646600-56669000	Weak transcription	Small Intestine	intestine
10	chr3:56646800-56673600	Weak transcription	Right Ventricle	heart
11	chr3:56647000-56666800	Weak transcription	Lung	lung
12	chr3:56647000-56672200	Weak transcription	Gastric	stomach
13	chr3:56647400-56707400	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr3:56647400-56707800	Strong transcription	Fetal Thymus	thymus
15	chr3:56647800-56668400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr3:56651400-56702000	Strong transcription	Primary neutrophils fromperipheralblood	blood
17	chr3:56652800-56701400	Weak transcription	Psoas Muscle	Psoas
18	chr3:56654600-56666800	Weak transcription	Colonic Mucosa	Colon
19	chr3:56654600-56666800	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr3:56656200-56683000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr3:56657400-56683800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr3:56657600-56675800	Strong transcription	Fetal Muscle Leg	muscle
23	chr3:56657800-56678000	Weak transcription	Fetal Brain Male	brain
24	chr3:56658000-56666800	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr3:56658400-56667400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr3:56658400-56668200	Strong transcription	Fetal Muscle Trunk	muscle
27	chr3:56659000-56666800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr3:56659000-56673000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr3:56659200-56666800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr3:56659400-56676200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr3:56659600-56666800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr3:56659600-56667600	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr3:56659600-56668200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr3:56660000-56666800	Weak transcription	Spleen	Spleen
35	chr3:56660600-56668000	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr3:56660600-56670800	Weak transcription	Fetal Brain Female	brain
37	chr3:56661400-56710600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr3:56661800-56674800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr3:56662200-56666800	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr3:56662200-56666800	Weak transcription	K562	blood
41	chr3:56662200-56667000	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr3:56662200-56667400	Weak transcription	NHLF	lung
43	chr3:56662200-56672800	Weak transcription	Brain Cingulate Gyrus	brain
44	chr3:56662400-56667200	Weak transcription	Rectal Smooth Muscle	rectum
45	chr3:56662400-56667600	Weak transcription	Brain Angular Gyrus	brain
46	chr3:56662400-56668200	Strong transcription	Fetal Stomach	stomach
47	chr3:56662400-56670800	Weak transcription	Brain Anterior Caudate	brain
48	chr3:56662400-56670800	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr3:56662400-56672800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr3:56662800-56667000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

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