Variant report

Variant	rs17411251
Chromosome Location	chr1:95079845-95079846
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:95079718..95082412-chr1:95085713..95087293,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12724134	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12738550	0.94[GIH][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17403082	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17411335	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17411572	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35415294	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4847206	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4847316	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	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:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:95065200-95081000	Enhancers	Stomach Mucosa	stomach
2	chr1:95065400-95081400	Enhancers	Fetal Intestine Small	intestine
3	chr1:95065600-95087200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr1:95072200-95080200	Weak transcription	Primary B cells from cord blood	blood
5	chr1:95075000-95082400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:95075000-95082400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr1:95075200-95088400	Weak transcription	Fetal Lung	lung
8	chr1:95075400-95081600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr1:95075400-95082000	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr1:95075400-95082000	Weak transcription	NH-A	brain
11	chr1:95075400-95082800	Weak transcription	Placenta	Placenta
12	chr1:95075600-95080800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr1:95075600-95086000	Weak transcription	Fetal Stomach	stomach
14	chr1:95076800-95080000	Enhancers	Monocytes-CD14+_RO01746	blood
15	chr1:95076800-95081000	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr1:95076800-95081400	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr1:95077000-95080000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr1:95077000-95082400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr1:95077400-95081200	Enhancers	Small Intestine	intestine
20	chr1:95077600-95081000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr1:95077800-95082000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr1:95078000-95081600	Weak transcription	A549	lung
23	chr1:95078200-95081800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr1:95078400-95081600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr1:95078400-95082000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr1:95078400-95082000	Weak transcription	Fetal Heart	heart
27	chr1:95078400-95082000	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr1:95078400-95082000	Weak transcription	NHEK	skin
29	chr1:95078400-95083000	Weak transcription	HepG2	liver
30	chr1:95078600-95080400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr1:95078600-95080800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr1:95078600-95081000	Enhancers	Rectal Mucosa Donor 29	rectum
33	chr1:95078600-95082000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr1:95078600-95082000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr1:95078600-95082000	Weak transcription	HMEC	breast
36	chr1:95078600-95082200	Weak transcription	Hela-S3	cervix
37	chr1:95078600-95082400	Weak transcription	NHLF	lung
38	chr1:95078600-95082800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr1:95078600-95083000	Weak transcription	Colonic Mucosa	Colon
40	chr1:95078600-95085200	Weak transcription	Pancreas	Pancrea
41	chr1:95078600-95086000	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr1:95078800-95080000	Weak transcription	Duodenum Mucosa	Duodenum
43	chr1:95078800-95080000	Weak transcription	Fetal Intestine Large	intestine
44	chr1:95079800-95080000	Enhancers	Lung	lung
45	chr1:95079800-95080200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr1:95079800-95080800	Enhancers	Adipose Nuclei	Adipose
47	chr1:95079800-95080800	Enhancers	Fetal Muscle Leg	muscle
48	chr1:95079800-95080800	Enhancers	Gastric	stomach
49	chr1:95079800-95080800	Enhancers	Sigmoid Colon	Sigmoid Colon
50	chr1:95079800-95081200	Enhancers	Dnd41	blood

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