Variant report

Variant	rs10856798
Chromosome Location	chr2:20583734-20583735
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr2:20583669-20583766	Pancreas_OC	pancreas:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:20582061..20584787-chr2:20647277..20649666,2	MCF-7	breast:
2	chr2:20581393..20584603-chr2:20588898..20591026,3	MCF-7	breast:

Variant related genes	Relation type
SLC7A15P	TF binding region

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11096661	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11096662	0.85[AMR][1000 genomes]
rs11675693	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11678068	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11683057	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11692468	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11692578	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11887662	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12472111	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12472980	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12475795	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17653822	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17670898	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2098293	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35133647	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58495411	0.87[AMR][1000 genomes]
rs62124611	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62124613	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62124635	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72788926	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72788927	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][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	nsv873716	chr2:20572094-20621404	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv581165	chr2:20581058-20616990	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20579200-20585400	Weak transcription	Colonic Mucosa	Colon
2	chr2:20579400-20584600	Weak transcription	Small Intestine	intestine
3	chr2:20579400-20585000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr2:20579400-20586000	Weak transcription	NHDF-Ad	bronchial
5	chr2:20579400-20586200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr2:20579400-20586200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr2:20579400-20586400	Weak transcription	Osteobl	bone
8	chr2:20581200-20586200	Weak transcription	Fetal Muscle Trunk	muscle
9	chr2:20581200-20586600	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr2:20581400-20585400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr2:20581600-20586200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr2:20581600-20586400	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr2:20581600-20587400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr2:20581600-20601000	Weak transcription	Right Atrium	heart
15	chr2:20581800-20583800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr2:20581800-20585000	Weak transcription	Placenta	Placenta
17	chr2:20581800-20586400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr2:20582000-20584200	Weak transcription	Fetal Intestine Small	intestine
19	chr2:20582200-20584600	Weak transcription	Fetal Intestine Large	intestine
20	chr2:20582400-20584000	Enhancers	Rectal Mucosa Donor 29	rectum
21	chr2:20582600-20586000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr2:20582800-20586400	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr2:20583200-20584400	Weak transcription	Duodenum Mucosa	Duodenum
24	chr2:20583200-20584600	Enhancers	Sigmoid Colon	Sigmoid Colon
25	chr2:20583200-20586000	Weak transcription	A549	lung
26	chr2:20583200-20586200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr2:20583400-20585600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr2:20583400-20587200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr2:20583600-20587200	Weak transcription	NHEK	skin

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