Variant report

Variant	rs3739719
Chromosome Location	chr9:104169089-104169090
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:104165233..104170505-chr9:104171045..104175682,8	MCF-7	breast:
2	chr9:104167280..104171241-chr9:104178855..104183117,5	K562	blood:
3	chr9:104160803..104165206-chr9:104167116..104171399,6	K562	blood:
4	chr9:104167820..104171241-chr9:104178855..104183117,4	K562	blood:

Variant related genes	Relation type
ENSG00000136897	Chromatin interaction
ENSG00000136870	Chromatin interaction

Extended variants
information (count: 4 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs10819927	0.81[ASN][1000 genomes]
rs1929480	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[MEX][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7467699	0.95[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.93[MEX][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[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	nsv1046975	chr9:104167583-104659873	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104162000-104169600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:104162600-104170400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr9:104162600-104170400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr9:104162600-104171600	Strong transcription	Placenta	Placenta
5	chr9:104162600-104172000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr9:104162800-104169200	Strong transcription	HUES6 Cell Line	embryonic stem cell
7	chr9:104162800-104169400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr9:104162800-104169600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr9:104162800-104170000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr9:104162800-104170000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr9:104162800-104172200	ZNF genes & repeats	A549	lung
12	chr9:104162800-104173800	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr9:104163000-104169600	Strong transcription	Fetal Thymus	thymus
14	chr9:104163000-104169800	Strong transcription	Skeletal Muscle Female	skeletal muscle
15	chr9:104163000-104173000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
16	chr9:104163200-104169200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr9:104163200-104170200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr9:104163200-104172600	ZNF genes & repeats	Primary B cells from cord blood	blood
19	chr9:104163200-104174000	ZNF genes & repeats	Fetal Lung	lung
20	chr9:104163400-104172200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
21	chr9:104163400-104174000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr9:104163600-104170600	Strong transcription	Placenta Amnion	Placenta Amnion
23	chr9:104163600-104173600	ZNF genes & repeats	Ovary	ovary
24	chr9:104164000-104170000	Strong transcription	Muscle Satellite Cultured Cells	--
25	chr9:104164000-104173600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr9:104164200-104172200	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:104164400-104171800	ZNF genes & repeats	Dnd41	blood
28	chr9:104164400-104172000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr9:104164400-104173400	ZNF genes & repeats	Colon Smooth Muscle	Colon
30	chr9:104164600-104173600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr9:104164600-104173800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr9:104164800-104173400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
33	chr9:104164800-104174200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr9:104164800-104174200	ZNF genes & repeats	Brain Hippocampus Middle	brain
35	chr9:104164800-104175400	ZNF genes & repeats	Fetal Muscle Leg	muscle
36	chr9:104165000-104173800	ZNF genes & repeats	Liver	Liver
37	chr9:104165200-104170200	Strong transcription	Primary T helper naive cells from peripheral blood	blood
38	chr9:104165200-104172000	ZNF genes & repeats	Fetal Intestine Large	intestine
39	chr9:104165200-104172000	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
40	chr9:104165200-104172200	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
41	chr9:104165200-104172200	ZNF genes & repeats	GM12878-XiMat	blood
42	chr9:104165200-104172200	ZNF genes & repeats	K562	blood
43	chr9:104165200-104172600	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
44	chr9:104165200-104172800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr9:104165400-104172000	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
46	chr9:104165400-104172000	ZNF genes & repeats	Fetal Kidney	kidney
47	chr9:104165400-104172200	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
48	chr9:104165400-104172400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr9:104165400-104172400	ZNF genes & repeats	Fetal Muscle Trunk	muscle
50	chr9:104165400-104172600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell

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