Variant report

Variant	rs3755816
Chromosome Location	chr3:53527439-53527440
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:53525897..53528498-chr3:53700129..53702578,2	MCF-7	breast:
2	chr3:53526182..53528875-chr3:53879796..53881358,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000157388	Chromatin interaction
ENSG00000016391	Chromatin interaction
ENSG00000056736	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs12488068	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12491071	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12492748	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17053081	1.00[EUR][1000 genomes]
rs28481733	1.00[EUR][1000 genomes]
rs34016406	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4432635	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	esv3442278	chr3:53527437-53530285	Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53513800-53527800	Weak transcription	Pancreas	Pancrea
2	chr3:53524200-53527600	Weak transcription	Colonic Mucosa	Colon
3	chr3:53526800-53527600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr3:53526800-53527600	Bivalent Enhancer	HepG2	liver
5	chr3:53526800-53527800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:53527000-53527600	Flanking Active TSS	Fetal Intestine Small	intestine
7	chr3:53527000-53527600	Enhancers	Fetal Kidney	kidney
8	chr3:53527000-53527800	Enhancers	Colon Smooth Muscle	Colon
9	chr3:53527000-53527800	Flanking Active TSS	Fetal Lung	lung
10	chr3:53527000-53527800	Enhancers	A549	lung
11	chr3:53527000-53528000	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr3:53527000-53530600	Active TSS	Pancreatic Islets	Pancreatic Islet
13	chr3:53527200-53527600	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
14	chr3:53527200-53527600	Enhancers	Ovary	ovary
15	chr3:53527200-53527800	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
16	chr3:53527200-53529200	Active TSS	Brain Inferior Temporal Lobe	brain
17	chr3:53527200-53529200	Active TSS	Duodenum Mucosa	Duodenum
18	chr3:53527200-53529200	Active TSS	Rectal Mucosa Donor 31	rectum
19	chr3:53527400-53527600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr3:53527400-53527600	Enhancers	Brain Anterior Caudate	brain
21	chr3:53527400-53527800	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
22	chr3:53527400-53527800	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
23	chr3:53527400-53527800	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
24	chr3:53527400-53527800	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
25	chr3:53527400-53527800	Bivalent/Poised TSS	Primary hematopoietic stem cells	blood
26	chr3:53527400-53527800	Bivalent/Poised TSS	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr3:53527400-53527800	Flanking Active TSS	Brain Angular Gyrus	brain
28	chr3:53527400-53527800	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
29	chr3:53527400-53527800	Bivalent Enhancer	Fetal Stomach	stomach
30	chr3:53527400-53527800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
31	chr3:53527400-53528000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr3:53527400-53528400	Enhancers	Stomach Mucosa	stomach
33	chr3:53527400-53529200	Active TSS	Fetal Intestine Large	intestine
34	chr3:53527400-53530200	Active TSS	Brain Hippocampus Middle	brain
35	chr3:53527400-53530400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
36	chr3:53527400-53530400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
37	chr3:53527400-53531000	Active TSS	Brain Cingulate Gyrus	brain

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