Variant report

Variant	rs73412059
Chromosome Location	chr11:9142932-9142933
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:9142265..9143151-chr11:9527999..9528931,2	K562	blood:
2	chr11:9113356..9115182-chr11:9141033..9143763,3	MCF-7	breast:
3	chr11:9142149..9143121-chr19:58289599..58290538,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DENND5A-1	chr11:9142717-9142948	XLOC_009370

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10743100	1.00[AMR][1000 genomes]
rs10840198	1.00[AMR][1000 genomes]
rs1809855	1.00[AMR][1000 genomes]
rs1874821	1.00[AMR][1000 genomes]
rs2016375	1.00[AMR][1000 genomes]
rs4372456	1.00[AMR][1000 genomes]
rs4450172	1.00[AMR][1000 genomes]
rs4910448	1.00[AMR][1000 genomes]
rs56306422	1.00[AMR][1000 genomes]
rs57655359	1.00[AMR][1000 genomes]
rs58309260	1.00[AMR][1000 genomes]
rs58795427	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59398820	1.00[AMR][1000 genomes]
rs59618374	1.00[AMR][1000 genomes]
rs59984721	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60542289	1.00[AMR][1000 genomes]
rs60602151	1.00[AMR][1000 genomes]
rs61379640	1.00[AMR][1000 genomes]
rs61409427	1.00[AMR][1000 genomes]
rs7119158	1.00[AMR][1000 genomes]
rs73402319	1.00[AMR][1000 genomes]
rs73402323	1.00[AMR][1000 genomes]
rs73402339	1.00[AMR][1000 genomes]
rs73402346	1.00[AMR][1000 genomes]
rs73402362	1.00[AMR][1000 genomes]
rs73402399	1.00[AMR][1000 genomes]
rs73404303	1.00[AMR][1000 genomes]
rs73404305	1.00[AMR][1000 genomes]
rs7931491	1.00[AMR][1000 genomes]
rs7932954	1.00[AMR][1000 genomes]
rs7935518	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7935573	1.00[AMR][1000 genomes]
rs7942119	1.00[AMR][1000 genomes]
rs7944130	1.00[AMR][1000 genomes]
rs7944713	1.00[AMR][1000 genomes]
rs7948651	0.96[AFR][1000 genomes];1.00[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	esv3413845	chr11:8887279-9285127	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv33264	chr11:9007612-9311131	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv896985	chr11:9013002-9152463	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9113600-9159800	Weak transcription	Right Ventricle	heart
2	chr11:9121800-9154800	Weak transcription	Brain Substantia Nigra	brain
3	chr11:9130800-9153600	Weak transcription	Brain Angular Gyrus	brain
4	chr11:9131200-9143000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr11:9132000-9153200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr11:9134000-9153000	Weak transcription	Brain Germinal Matrix	brain
7	chr11:9134000-9154000	Weak transcription	Osteobl	bone
8	chr11:9134200-9154000	Weak transcription	NHDF-Ad	bronchial
9	chr11:9134800-9159000	Weak transcription	Brain Hippocampus Middle	brain
10	chr11:9134800-9161200	Weak transcription	Fetal Brain Male	brain
11	chr11:9135200-9152600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr11:9135400-9143000	Weak transcription	Fetal Muscle Trunk	muscle
13	chr11:9135600-9153000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr11:9136400-9159200	Weak transcription	Brain Anterior Caudate	brain
15	chr11:9136800-9143000	Weak transcription	Fetal Brain Female	brain
16	chr11:9137200-9145400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr11:9137200-9159000	Weak transcription	Fetal Heart	heart
18	chr11:9137800-9146200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr11:9141200-9144000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr11:9141200-9153000	Weak transcription	Stomach Smooth Muscle	stomach
21	chr11:9141400-9151800	Weak transcription	Psoas Muscle	Psoas
22	chr11:9141400-9153600	Weak transcription	Primary T cells from cord blood	blood
23	chr11:9141400-9153800	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr11:9141600-9151800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr11:9141600-9158400	Weak transcription	Pancreas	Pancrea
26	chr11:9141800-9143600	Enhancers	iPS-15b Cell Line	embryonic stem cell
27	chr11:9141800-9143600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr11:9141800-9143800	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr11:9142000-9143600	Enhancers	HUES64 Cell Line	embryonic stem cell
30	chr11:9142000-9143600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr11:9142000-9148400	Weak transcription	Right Atrium	heart
32	chr11:9142000-9157200	Weak transcription	NHLF	lung
33	chr11:9142200-9143400	Enhancers	H9 Cell Line	embryonic stem cell
34	chr11:9142200-9143400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr11:9142200-9143600	Enhancers	H1 Cell Line	embryonic stem cell
36	chr11:9142400-9143000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr11:9142400-9143400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr11:9142400-9143400	Strong transcription	Aorta	Aorta
39	chr11:9142400-9143800	Strong transcription	Fetal Stomach	stomach
40	chr11:9142400-9163000	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr11:9142600-9143000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr11:9142600-9143600	Enhancers	HUES6 Cell Line	embryonic stem cell
43	chr11:9142600-9143800	Enhancers	HUES48 Cell Line	embryonic stem cell
44	chr11:9142600-9153000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr11:9142600-9159000	Weak transcription	Adipose Nuclei	Adipose
46	chr11:9142600-9159200	Weak transcription	Duodenum Mucosa	Duodenum
47	chr11:9142600-9175000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr11:9142800-9143000	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
49	chr11:9142800-9143000	Flanking Active TSS	ES-WA7 Cell Line	embryonic stem cell
50	chr11:9142800-9143200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell

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