Variant report

Variant	rs7620081
Chromosome Location	chr3:51500591-51500592
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:51495549..51497526-chr3:51499489..51501703,2	MCF-7	breast:

Extended variants
information (count: 3 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs73078654	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7634016	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7620081	USP4	cis	multi-tissue	Pritchard

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51458200-51515000	Weak transcription	Fetal Brain Male	brain
2	chr3:51458800-51503800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:51467800-51502000	Weak transcription	HMEC	breast
4	chr3:51467800-51524000	Weak transcription	Small Intestine	intestine
5	chr3:51476000-51506000	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr3:51477200-51515000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr3:51490400-51515000	Weak transcription	Stomach Mucosa	stomach
8	chr3:51491400-51532800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr3:51495000-51532600	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr3:51495400-51505800	Weak transcription	NHLF	lung
11	chr3:51495400-51513200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr3:51495600-51505200	Strong transcription	Primary neutrophils fromperipheralblood	blood
13	chr3:51495600-51505800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr3:51495600-51508800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr3:51495600-51509600	Strong transcription	HUES64 Cell Line	embryonic stem cell
16	chr3:51495600-51509600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
17	chr3:51495800-51500600	Strong transcription	Fetal Kidney	kidney
18	chr3:51495800-51502200	Strong transcription	Thymus	Thymus
19	chr3:51495800-51502400	Strong transcription	Fetal Muscle Leg	muscle
20	chr3:51495800-51505800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:51495800-51506600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr3:51495800-51506600	Strong transcription	Adipose Nuclei	Adipose
23	chr3:51495800-51507000	Strong transcription	HUES6 Cell Line	embryonic stem cell
24	chr3:51495800-51508400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr3:51495800-51508800	Strong transcription	Duodenum Mucosa	Duodenum
26	chr3:51495800-51510400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr3:51495800-51510400	Strong transcription	Primary B cells from peripheral blood	blood
28	chr3:51495800-51510400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr3:51495800-51510600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr3:51495800-51518200	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr3:51495800-51518200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr3:51495800-51526800	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr3:51495800-51531800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr3:51496000-51502200	Strong transcription	Fetal Intestine Large	intestine
35	chr3:51496000-51506000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
36	chr3:51496000-51517800	Strong transcription	Fetal Muscle Trunk	muscle
37	chr3:51496000-51518400	Strong transcription	Fetal Stomach	stomach
38	chr3:51496000-51531800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr3:51496200-51501000	Strong transcription	H1 Cell Line	embryonic stem cell
40	chr3:51496200-51501000	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr3:51496200-51501000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr3:51496200-51501000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr3:51496200-51502200	Strong transcription	Pancreas	Pancrea
44	chr3:51496200-51502200	Strong transcription	HUVEC	blood vessel
45	chr3:51496200-51502400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr3:51496200-51502400	Strong transcription	Sigmoid Colon	Sigmoid Colon
47	chr3:51496200-51504200	Strong transcription	Rectal Mucosa Donor 31	rectum
48	chr3:51496200-51505000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr3:51496200-51505200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr3:51496200-51506600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--

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