Variant report

Variant	rs3776179
Chromosome Location	chr5:100238064-100238065
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	chr5:100236783..100238679-chr5:100254153..100256403,2	MCF-7	breast:

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

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

rs_ID	r²[population]
rs1423381	0.84[ASN][1000 genomes]
rs17160705	0.90[ASN][1000 genomes]
rs2544911	0.84[ASN][1000 genomes]
rs2544914	0.84[ASN][1000 genomes]
rs2544915	0.84[ASN][1000 genomes]
rs2544917	0.82[ASN][1000 genomes]
rs2544919	0.82[ASN][1000 genomes]
rs2548272	0.88[ASN][1000 genomes]
rs2548277	0.84[ASN][1000 genomes]
rs2561524	0.84[ASN][1000 genomes]
rs2561525	0.84[ASN][1000 genomes]
rs2561526	0.84[ASN][1000 genomes]
rs2725118	0.82[ASN][1000 genomes]
rs2725123	0.82[ASN][1000 genomes]
rs2895683	0.91[AFR][1000 genomes]
rs3776165	0.88[ASN][1000 genomes]
rs3776166	0.88[ASN][1000 genomes]
rs3776172	0.98[ASN][1000 genomes]
rs73162282	1.00[ASN][1000 genomes]
rs980901	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023765	chr5:99915011-100733755	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
2	esv1834675	chr5:100143084-100535029	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
3	nsv882471	chr5:100234439-100362071	Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv882472	chr5:100234439-100512338	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:100232600-100245600	Active TSS	GM12878-XiMat	blood
2	chr5:100235400-100241400	Active TSS	Duodenum Mucosa	Duodenum
3	chr5:100235600-100238800	Active TSS	Rectal Smooth Muscle	rectum
4	chr5:100235600-100239000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr5:100235600-100240400	Active TSS	Brain Angular Gyrus	brain
6	chr5:100235600-100240600	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
7	chr5:100235600-100240600	Active TSS	Thymus	Thymus
8	chr5:100235800-100238200	Active TSS	Brain Cingulate Gyrus	brain
9	chr5:100235800-100239600	Active TSS	HSMMtube	muscle
10	chr5:100235800-100239800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr5:100235800-100240400	Active TSS	Brain Anterior Caudate	brain
12	chr5:100235800-100240400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
13	chr5:100235800-100240400	Active TSS	Lung	lung
14	chr5:100235800-100240600	Bivalent/Poised TSS	Fetal Intestine Small	intestine
15	chr5:100235800-100240600	Active TSS	Pancreatic Islets	Pancreatic Islet
16	chr5:100235800-100241000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr5:100235800-100241400	Active TSS	Right Atrium	heart
18	chr5:100236000-100239000	Active TSS	Colon Smooth Muscle	Colon
19	chr5:100236000-100239400	Active TSS	Primary T cells from cord blood	blood
20	chr5:100236000-100239600	Active TSS	Primary T killer memory cells from peripheral blood	blood
21	chr5:100236000-100239600	Active TSS	A549	lung
22	chr5:100236000-100239800	Active TSS	NHDF-Ad	bronchial
23	chr5:100236000-100240400	Active TSS	Colonic Mucosa	Colon
24	chr5:100236000-100240400	Bivalent/Poised TSS	Fetal Intestine Large	intestine
25	chr5:100236000-100240400	Active TSS	Small Intestine	intestine
26	chr5:100236000-100240600	Active TSS	Right Ventricle	heart
27	chr5:100236000-100240600	Active TSS	Sigmoid Colon	Sigmoid Colon
28	chr5:100236000-100240800	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
29	chr5:100236200-100238200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr5:100236200-100239200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr5:100236200-100239200	Active TSS	Fetal Brain Male	brain
32	chr5:100236200-100239200	Active TSS	Gastric	stomach
33	chr5:100236200-100239400	Active TSS	Primary monocytes fromperipheralblood	blood
34	chr5:100236200-100239600	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr5:100236200-100239600	Active TSS	Fetal Lung	lung
36	chr5:100236200-100240800	Active TSS	Primary T helper naive cells from peripheral blood	blood
37	chr5:100236200-100241200	Active TSS	Liver	Liver
38	chr5:100236200-100241400	Active TSS	Primary T killer naive cells fromperipheralblood	blood
39	chr5:100236400-100238400	Active TSS	Duodenum Smooth Muscle	Duodenum
40	chr5:100236400-100239200	Active TSS	Fetal Thymus	thymus
41	chr5:100236400-100239200	Active TSS	Monocytes-CD14+_RO01746	blood
42	chr5:100236400-100239400	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr5:100236600-100238600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
44	chr5:100236600-100240800	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
45	chr5:100236800-100238400	Flanking Active TSS	NHEK	skin
46	chr5:100237000-100238200	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
47	chr5:100237000-100238200	Weak transcription	K562	blood
48	chr5:100237000-100238600	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
49	chr5:100237000-100239600	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
50	chr5:100237000-100240400	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach

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