Variant report

Variant	rs2759708
Chromosome Location	chr13:53776098-53776099
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:53239228..53240126-chr13:53775321..53776150,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1016829	0.95[ASN][1000 genomes]
rs1322938	0.81[EUR][1000 genomes]
rs1322949	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1322951	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1322952	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1322955	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1322956	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1322961	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1322962	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1407686	0.82[ASN][1000 genomes]
rs1853369	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1909648	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1923771	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2015677	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2038649	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2093599	0.85[EUR][1000 genomes]
rs2491124	0.89[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs2759675	0.84[EUR][1000 genomes]
rs2759706	0.95[ASN][1000 genomes]
rs2759709	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2759712	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2759716	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2806936	0.87[ASN][1000 genomes]
rs2806939	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2806941	0.89[ASN][1000 genomes]
rs2806956	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2806960	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2806963	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2806964	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2806966	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4886270	0.92[ASN][1000 genomes]
rs7984963	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7994915	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8002513	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs912051	0.84[EUR][1000 genomes]
rs912052	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs912054	0.83[ASN][1000 genomes]
rs927518	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9527057	0.87[ASN][1000 genomes]
rs9568813	0.81[ASN][1000 genomes]
rs9568826	0.86[ASN][1000 genomes]
rs959222	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050969	chr13:53665927-54064861	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv3427175	chr13:53773776-53776324	Bivalent Enhancer Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
3	esv3386985	chr13:53774176-53776724	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	n/a
4	esv16748	chr13:53774609-53776399	Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	n/a
5	esv1819513	chr13:53774627-53776265	Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	n/a
6	esv1835841	chr13:53774627-53776265	Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
7	esv1834091	chr13:53774627-53784083	Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	n/a
8	esv1838050	chr13:53774627-53784083	Bivalent Enhancer Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	n/a
9	esv1835986	chr13:53774627-53786026	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	n/a
10	esv1840677	chr13:53774627-53791895	Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:53774200-53776200	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr13:53774200-53776200	ZNF genes & repeats	Spleen	Spleen
3	chr13:53774200-53776600	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr13:53774400-53776600	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr13:53774400-53776600	Enhancers	Pancreas	Pancrea
6	chr13:53774800-53776400	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
7	chr13:53774800-53776400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
8	chr13:53774800-53776400	Bivalent Enhancer	Lung	lung
9	chr13:53775000-53776200	Bivalent Enhancer	Adipose Nuclei	Adipose
10	chr13:53775200-53776400	Bivalent/Poised TSS	Fetal Brain Female	brain
11	chr13:53775400-53776400	Active TSS	Brain Anterior Caudate	brain
12	chr13:53775400-53776400	Active TSS	Brain Cingulate Gyrus	brain
13	chr13:53775600-53776200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr13:53775600-53776200	Bivalent Enhancer	Right Ventricle	heart
15	chr13:53775800-53776200	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr13:53775800-53776200	Flanking Active TSS	Gastric	stomach
17	chr13:53775800-53776200	Enhancers	Placenta Amnion	Placenta Amnion
18	chr13:53775800-53776400	Bivalent Enhancer	Brain Dorsolateral Prefrontal Cortex	brain
19	chr13:53775800-53776600	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
20	chr13:53776000-53776200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr13:53776000-53776200	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr13:53776000-53776200	Bivalent Enhancer	Fetal Brain Male	brain
23	chr13:53776000-53776200	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
24	chr13:53776000-53776400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr13:53776000-53776400	Bivalent/Poised TSS	Brain Germinal Matrix	brain
26	chr13:53776000-53776400	Bivalent/Poised TSS	Brain Hippocampus Middle	brain

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