Variant report

Variant	rs163893
Chromosome Location	chr5:106877574-106877575
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	chr5:106867857..106870035-chr5:106875652..106879640,3	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs149155	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs163614	1.00[CEU][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes]
rs163889	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs163890	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs163891	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs341276	0.90[CEU][hapmap];0.85[AMR][1000 genomes]
rs341277	0.90[CEU][hapmap];0.83[TSI][hapmap];0.85[AMR][1000 genomes]
rs341278	0.90[CEU][hapmap]
rs458393	0.89[CEU][hapmap]
rs462885	0.80[CEU][hapmap];0.85[TSI][hapmap]
rs464250	0.90[CEU][hapmap];0.83[TSI][hapmap]
rs698372	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs848829	0.90[CEU][hapmap];0.83[TSI][hapmap];0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034276	chr5:106461538-106944163	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv537851	chr5:106461538-106944163	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	esv34018	chr5:106720912-107110506	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106842400-106880000	Weak transcription	Gastric	stomach
2	chr5:106865400-106880000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr5:106867200-106879800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr5:106868800-106878000	Weak transcription	Right Atrium	heart
5	chr5:106871000-106878200	Weak transcription	Fetal Lung	lung
6	chr5:106872000-106877800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr5:106872200-106878200	Weak transcription	Pancreas	Pancrea
8	chr5:106872400-106877800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr5:106873600-106882600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:106874800-106877800	Weak transcription	NH-A	brain
11	chr5:106874800-106878000	Weak transcription	HSMMtube	muscle
12	chr5:106875000-106877800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr5:106875000-106877800	Weak transcription	Rectal Smooth Muscle	rectum
14	chr5:106875000-106878000	Weak transcription	Right Ventricle	heart
15	chr5:106875000-106882800	Weak transcription	Brain Angular Gyrus	brain
16	chr5:106875000-106885200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr5:106875200-106878000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr5:106875200-106878000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr5:106875200-106878000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr5:106875200-106878000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr5:106875200-106878000	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr5:106875200-106878000	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr5:106875200-106878200	Weak transcription	Psoas Muscle	Psoas
24	chr5:106875400-106878200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr5:106875600-106877600	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr5:106875800-106878200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr5:106875800-106878200	Weak transcription	Fetal Muscle Leg	muscle
28	chr5:106875800-106878200	Weak transcription	Thymus	Thymus
29	chr5:106875800-106878600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr5:106875800-106879000	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr5:106875800-106879600	Weak transcription	Esophagus	oesophagus
32	chr5:106875800-106879600	Weak transcription	Left Ventricle	heart
33	chr5:106876000-106877800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr5:106876000-106877800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr5:106876000-106878000	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr5:106876000-106878000	Weak transcription	Aorta	Aorta
37	chr5:106876000-106878000	Weak transcription	Dnd41	blood
38	chr5:106876000-106878200	Weak transcription	Fetal Thymus	thymus
39	chr5:106876000-106878800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr5:106876000-106879000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr5:106876000-106879400	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr5:106876000-106879600	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr5:106876000-106879600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr5:106876200-106877800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr5:106876200-106878000	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr5:106876200-106879400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr5:106877000-106877600	Enhancers	HUVEC	blood vessel
48	chr5:106877000-106878000	Enhancers	Muscle Satellite Cultured Cells	--
49	chr5:106877000-106878400	Enhancers	GM12878-XiMat	blood
50	chr5:106877000-106879800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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