Variant report

Variant	rs9842816
Chromosome Location	chr3:112407227-112407228
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	chr3:112396444..112398004-chr3:112404966..112407512,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11927615	0.90[ASN][1000 genomes]
rs12054001	0.90[ASN][1000 genomes]
rs1249910	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1249929	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13088866	0.90[ASN][1000 genomes]
rs17457593	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2399449	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28374264	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3843366	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4145150	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4145151	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs55894063	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56302621	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs57211180	0.80[AMR][1000 genomes]
rs60397548	0.90[ASN][1000 genomes]
rs6772102	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6793555	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72943992	0.82[ASN][1000 genomes]
rs7630314	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs820544	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs820545	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9845240	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9864580	0.83[ASN][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	esv3329419	chr3:112236688-112620544	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv432477	chr3:112390310-112603310	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112391400-112407800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:112400400-112408200	Enhancers	NHLF	lung
3	chr3:112400600-112408800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr3:112401000-112408800	Enhancers	Muscle Satellite Cultured Cells	--
5	chr3:112401200-112413800	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:112401400-112408200	Enhancers	Osteobl	bone
7	chr3:112401800-112407600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr3:112402600-112407800	Enhancers	NHDF-Ad	bronchial
9	chr3:112403000-112407400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr3:112403200-112409200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr3:112403400-112409200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr3:112403600-112409600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:112404000-112409400	Enhancers	Placenta Amnion	Placenta Amnion
14	chr3:112404200-112408600	Weak transcription	Primary T cells from cord blood	blood
15	chr3:112404200-112408800	Enhancers	NH-A	brain
16	chr3:112404400-112408200	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr3:112404400-112408800	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr3:112405200-112409000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr3:112405200-112409200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr3:112405400-112411800	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr3:112405400-112412000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr3:112405800-112411800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:112406000-112411800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr3:112406400-112408800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr3:112406400-112408800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr3:112406600-112408000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr3:112406600-112408400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr3:112406600-112408600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr3:112406800-112407600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr3:112406800-112407600	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr3:112406800-112408000	Weak transcription	K562	blood
32	chr3:112407000-112408000	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr3:112407000-112408800	Enhancers	HMEC	breast
34	chr3:112407000-112408800	Enhancers	NHEK	skin
35	chr3:112407000-112409000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr3:112407200-112407400	Flanking Active TSS	A549	lung

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