Variant report

Variant	rs11853674
Chromosome Location	chr15:58684057-58684058
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	chr15:58681878..58684869-chr15:58759181..58760747,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11855284	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11856159	0.90[CHB][hapmap]
rs11857380	0.91[CHB][hapmap]
rs11858481	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12440032	0.91[CHB][hapmap]
rs12905732	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12906722	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16940204	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17821310	0.91[CHB][hapmap]
rs2043084	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35128881	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs487766	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7171102	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047246	chr15:58375607-58707158	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv529717	chr15:58519923-58756814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1042201	chr15:58520746-58780710	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv904266	chr15:58580921-58689187	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58679400-58690600	Enhancers	Placenta Amnion	Placenta Amnion
2	chr15:58680000-58688000	Weak transcription	NHLF	lung
3	chr15:58681000-58686000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr15:58681000-58686000	Enhancers	Placenta	Placenta
5	chr15:58681000-58686200	Enhancers	Liver	Liver
6	chr15:58681600-58685000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr15:58681600-58685000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr15:58681600-58693400	Weak transcription	Pancreas	Pancrea
9	chr15:58681800-58686200	Enhancers	Fetal Kidney	kidney
10	chr15:58682000-58684200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr15:58682000-58687800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr15:58682200-58684200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr15:58682200-58684200	Weak transcription	HMEC	breast
14	chr15:58682200-58684800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr15:58682400-58687000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr15:58682800-58684800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr15:58682800-58687400	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr15:58682800-58687400	Weak transcription	Osteobl	bone
19	chr15:58682800-58687600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr15:58682800-58687600	Weak transcription	HSMM	muscle
21	chr15:58683200-58687000	Weak transcription	NHDF-Ad	bronchial
22	chr15:58683600-58685400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr15:58683600-58686200	Enhancers	HSMMtube	muscle
24	chr15:58683600-58693600	Weak transcription	Spleen	Spleen
25	chr15:58683800-58685600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr15:58683800-58686000	Enhancers	Breast Myoepithelial Primary Cells	Breast

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