Variant report

Variant	rs1033166
Chromosome Location	chr15:46006801-46006802
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:46006507..46007343-chr15:46082324..46083236,6	MCF-7	breast:
2	chr15:46006790..46007374-chr15:46082648..46083178,2	MCF-7	breast:
3	chr15:45997687..45998467-chr15:46006520..46007480,3	MCF-7	breast:
4	chr15:46006164..46008790-chr15:46082417..46084060,2	MCF-7	breast:

Extended variants
information (count: 8 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs11633148	0.80[AMR][1000 genomes]
rs12899530	0.80[AMR][1000 genomes]
rs12900247	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12901441	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12912809	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904189	chr15:45821158-46298458	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv904191	chr15:45902779-46381874	Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv523136	chr15:45990780-46158407	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs1033166	VPS18	cis	cerebellum	SCAN
rs1033166	NDUFAF1	cis	cerebellum	SCAN
rs1033166	GATM	cis	lymphoblastoid	seeQTL
rs1033166	TNFRSF21	trans	lymphoblastoid	seeQTL
rs1033166	CHP	cis	cerebellum	SCAN

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45998000-46007000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:45998200-46007000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr15:46003000-46007000	Weak transcription	Gastric	stomach
4	chr15:46003200-46011600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr15:46003200-46011800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr15:46006600-46007000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
7	chr15:46006600-46007200	Enhancers	Primary T helper cells fromperipheralblood	blood
8	chr15:46006600-46007400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr15:46006600-46007400	Enhancers	Muscle Satellite Cultured Cells	--
10	chr15:46006600-46007600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr15:46006600-46007600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr15:46006600-46007600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr15:46006600-46007800	Enhancers	NHLF	lung
14	chr15:46006600-46008400	Enhancers	Rectal Smooth Muscle	rectum
15	chr15:46006800-46007000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr15:46006800-46007000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr15:46006800-46007000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr15:46006800-46007000	Enhancers	Psoas Muscle	Psoas
19	chr15:46006800-46007200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr15:46006800-46007200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr15:46006800-46007200	Flanking Active TSS	Colon Smooth Muscle	Colon
22	chr15:46006800-46007200	Enhancers	Placenta	Placenta
23	chr15:46006800-46007200	Enhancers	Ovary	ovary
24	chr15:46006800-46007200	Enhancers	Placenta Amnion	Placenta Amnion
25	chr15:46006800-46007200	Active TSS	Stomach Smooth Muscle	stomach
26	chr15:46006800-46007200	Flanking Active TSS	NHDF-Ad	bronchial
27	chr15:46006800-46007200	Flanking Active TSS	Osteobl	bone
28	chr15:46006800-46007400	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
29	chr15:46006800-46007600	Enhancers	HUVEC	blood vessel
30	chr15:46006800-46007600	Enhancers	K562	blood

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