Variant report

Variant	rs2341569
Chromosome Location	chr12:124390681-124390682
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:124389950..124393053-chr12:124455413..124457949,3	MCF-7	breast:
2	chr12:124295197..124298095-chr12:124388889..124391568,2	MCF-7	breast:
3	chr12:124389629..124391597-chr12:124394347..124396284,2	K562	blood:

Variant related genes	Relation type
ENSG00000270095	Chromatin interaction
ENSG00000178882	Chromatin interaction
ENSG00000119242	Chromatin interaction
ENSG00000179195	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10773046	0.83[ASN][1000 genomes]
rs10773047	0.82[ASN][1000 genomes]
rs10846570	0.82[ASN][1000 genomes]
rs10846571	0.82[ASN][1000 genomes]
rs10846572	0.84[ASN][1000 genomes]
rs10846573	0.84[ASN][1000 genomes]
rs10846574	0.80[ASN][1000 genomes]
rs10846575	0.90[ASN][1000 genomes]
rs10846576	0.95[ASN][1000 genomes]
rs11057388	0.84[ASN][1000 genomes]
rs11057389	0.84[ASN][1000 genomes]
rs11057390	0.84[ASN][1000 genomes]
rs12306328	0.84[ASN][1000 genomes]
rs12307524	0.84[ASN][1000 genomes]
rs12309481	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28435362	0.95[ASN][1000 genomes]
rs28528904	0.95[ASN][1000 genomes]
rs28654550	0.95[ASN][1000 genomes]
rs34587940	0.93[ASN][1000 genomes]
rs4390427	0.81[ASN][1000 genomes]
rs57078519	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57316347	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58411567	0.95[ASN][1000 genomes]
rs61587964	0.95[ASN][1000 genomes]
rs6488910	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7296123	0.84[ASN][1000 genomes]
rs7303634	0.84[ASN][1000 genomes]
rs7314278	0.84[ASN][1000 genomes]
rs7964324	0.94[ASN][1000 genomes]
rs7970597	0.95[ASN][1000 genomes]
rs7976319	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7977078	0.94[ASN][1000 genomes]
rs7978781	0.95[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	nsv498024	chr12:123994372-124459856	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv1811815	chr12:124374716-124424636	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv1832870	chr12:124374716-124424636	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv522321	chr12:124383950-124424636	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv560499	chr12:124389150-124396816	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:124382000-124391400	Weak transcription	Fetal Lung	lung
2	chr12:124384000-124408400	Weak transcription	Fetal Brain Female	brain
3	chr12:124386000-124391400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr12:124386000-124395800	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr12:124386200-124390800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr12:124386200-124392000	Weak transcription	NH-A	brain
7	chr12:124386200-124392200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr12:124386200-124394000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr12:124386800-124391800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr12:124387200-124392000	Weak transcription	Fetal Thymus	thymus
11	chr12:124388400-124391800	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr12:124390000-124392200	Weak transcription	Brain Hippocampus Middle	brain
13	chr12:124390200-124391400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr12:124390200-124391600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr12:124390200-124391600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr12:124390200-124391800	Weak transcription	Fetal Kidney	kidney
17	chr12:124390200-124391800	Weak transcription	HMEC	breast
18	chr12:124390200-124397600	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr12:124390400-124391600	Weak transcription	NHDF-Ad	bronchial
20	chr12:124390400-124392000	Weak transcription	Brain Cingulate Gyrus	brain
21	chr12:124390400-124392000	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr12:124390400-124392000	Weak transcription	Fetal Intestine Small	intestine
23	chr12:124390400-124392400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr12:124390600-124391800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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