Variant report

Variant	rs56855707
Chromosome Location	chr5:107709809-107709810
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:393917..395827-chr5:107707504..107710114,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000184363	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10061044	0.90[ASN][1000 genomes]
rs10515385	0.80[EUR][1000 genomes]
rs10515388	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11242664	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12652675	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12653027	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12653689	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12654140	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12657542	0.88[AFR][1000 genomes]
rs12658760	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12658885	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12659437	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17161193	0.82[EUR][1000 genomes]
rs17385914	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17386492	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17386875	0.96[ASN][1000 genomes]
rs17387645	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17388244	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17450705	0.80[EUR][1000 genomes]
rs17452357	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17452992	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2052463	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2416528	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4129424	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4364376	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55755463	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56044682	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58131807	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58212758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58844678	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61603913	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6870480	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6880005	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6888190	0.88[AFR][1000 genomes]
rs72791270	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73214528	0.84[ASN][1000 genomes]
rs73214536	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7703032	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7703347	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7704811	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7711717	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7724245	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7724860	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7724884	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7733036	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882683	chr5:107476501-107769095	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv882686	chr5:107564746-107769095	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv882688	chr5:107595383-107715746	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
5	esv2755544	chr5:107614101-107748101	Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107697200-107715200	Weak transcription	HSMM	muscle
2	chr5:107698200-107715600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr5:107699000-107712800	Weak transcription	Right Ventricle	heart
4	chr5:107706400-107710000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr5:107706400-107714200	Weak transcription	Left Ventricle	heart
6	chr5:107707400-107710400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr5:107707600-107710200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr5:107707600-107710200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
9	chr5:107707600-107710600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr5:107707800-107710200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
11	chr5:107708600-107716200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr5:107709200-107710000	ZNF genes & repeats	Fetal Lung	lung
13	chr5:107709200-107710000	ZNF genes & repeats	HSMMtube	muscle
14	chr5:107709200-107710200	ZNF genes & repeats	Duodenum Mucosa	Duodenum
15	chr5:107709200-107710200	ZNF genes & repeats	Dnd41	blood
16	chr5:107709200-107711000	ZNF genes & repeats	Fetal Intestine Small	intestine
17	chr5:107709200-107712200	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr5:107709400-107710200	ZNF genes & repeats	Primary T cells from cord blood	blood
19	chr5:107709400-107710200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr5:107709600-107713800	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr5:107709600-107714200	Weak transcription	Gastric	stomach
22	chr5:107709600-107715600	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr5:107709600-107715600	Weak transcription	Thymus	Thymus
24	chr5:107709600-107716000	Weak transcription	Ovary	ovary
25	chr5:107709800-107715200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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