Variant report

Variant	rs1747656
Chromosome Location	chr1:95064000-95064001
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	chr1:95002334..95004389-chr1:95062847..95065293,3	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10399782	1.00[EUR][1000 genomes]
rs1146475	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1146478	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1146479	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1146483	0.81[AFR][1000 genomes]
rs1146486	0.87[AFR][1000 genomes]
rs1146499	0.85[AFR][1000 genomes]
rs1146503	0.84[AFR][1000 genomes]
rs1146504	0.87[AFR][1000 genomes]
rs1146506	1.00[EUR][1000 genomes]
rs1146508	0.87[AFR][1000 genomes]
rs1146516	1.00[EUR][1000 genomes]
rs12064943	1.00[EUR][1000 genomes]
rs12065028	1.00[EUR][1000 genomes]
rs1303133	0.87[AFR][1000 genomes]
rs1303136	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1343483	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1577920	1.00[EUR][1000 genomes]
rs1617719	1.00[EUR][1000 genomes]
rs1687938	1.00[EUR][1000 genomes]
rs1687939	1.00[EUR][1000 genomes]
rs1687942	1.00[EUR][1000 genomes]
rs1687969	1.00[EUR][1000 genomes]
rs17112279	1.00[EUR][1000 genomes]
rs1747648	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1747658	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1749540	1.00[EUR][1000 genomes]
rs1765631	1.00[EUR][1000 genomes]
rs1765633	1.00[EUR][1000 genomes]
rs1765634	1.00[EUR][1000 genomes]
rs1765653	1.00[EUR][1000 genomes]
rs1772902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1778210	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1778224	0.87[AFR][1000 genomes]
rs2798944	1.00[EUR][1000 genomes]
rs2971948	1.00[EUR][1000 genomes]
rs479627	1.00[EUR][1000 genomes]
rs484420	1.00[EUR][1000 genomes]
rs4847315	1.00[EUR][1000 genomes]
rs512648	1.00[EUR][1000 genomes]
rs513976	1.00[EUR][1000 genomes]
rs529642	1.00[EUR][1000 genomes]
rs598962	1.00[EUR][1000 genomes]
rs610088	1.00[EUR][1000 genomes]
rs630382	1.00[EUR][1000 genomes]
rs6660037	1.00[EUR][1000 genomes]
rs698945	1.00[EUR][1000 genomes]
rs768967	1.00[EUR][1000 genomes]
rs860909	1.00[EUR][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	nsv870696	chr1:95005220-95081587	Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv871391	chr1:95005220-95083836	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1001587	chr1:95027691-95318680	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
4	nsv871279	chr1:95028981-95083836	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv1804937	chr1:95051930-95081587	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:95046000-95065400	Weak transcription	Fetal Intestine Large	intestine
2	chr1:95056200-95067800	Weak transcription	Gastric	stomach
3	chr1:95056800-95069000	Weak transcription	Right Atrium	heart
4	chr1:95057400-95069000	Weak transcription	Aorta	Aorta
5	chr1:95059400-95064600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr1:95059400-95074200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr1:95060800-95064400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr1:95060800-95065400	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr1:95061400-95066000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr1:95061400-95076800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr1:95061600-95064400	Weak transcription	HMEC	breast
12	chr1:95061600-95064600	Weak transcription	Stomach Mucosa	stomach
13	chr1:95061600-95065000	Weak transcription	Brain Anterior Caudate	brain
14	chr1:95061600-95067600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr1:95061600-95068800	Weak transcription	NHLF	lung
16	chr1:95061600-95071600	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr1:95061800-95064800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr1:95061800-95065400	Weak transcription	Fetal Intestine Small	intestine
19	chr1:95062000-95066600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr1:95062000-95072200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr1:95062400-95064800	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr1:95062400-95070800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr1:95062600-95064800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr1:95062600-95067600	Enhancers	Primary neutrophils fromperipheralblood	blood
25	chr1:95063200-95064000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr1:95063200-95067800	Enhancers	Primary monocytes fromperipheralblood	blood
27	chr1:95063400-95066200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr1:95063400-95066200	Weak transcription	Left Ventricle	heart
29	chr1:95063600-95064000	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr1:95063600-95064800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr1:95063600-95064800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr1:95063600-95065000	Weak transcription	Hela-S3	cervix
33	chr1:95063600-95067200	Weak transcription	Placenta	Placenta
34	chr1:95064000-95064400	Enhancers	Monocytes-CD14+_RO01746	blood
35	chr1:95064000-95069600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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