Variant report

Variant	rs59343255
Chromosome Location	chr15:41630329-41630330
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:41624828..41628220-chr15:41629366..41632167,7	K562	blood:
2	chr15:41623039..41626480-chr15:41628933..41631074,3	MCF-7	breast:
3	chr15:41629582..41631573-chr15:41631644..41635363,4	K562	blood:
4	chr15:41220671..41223072-chr15:41629267..41631082,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259396	Chromatin interaction
ENSG00000137804	Chromatin interaction
ENSG00000104147	Chromatin interaction
ENSG00000128917	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs2918464	1.00[AMR][1000 genomes]
rs2947487	1.00[AMR][1000 genomes]
rs2947490	1.00[AMR][1000 genomes]
rs35123814	0.98[AFR][1000 genomes]
rs36124939	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55643943	0.82[AFR][1000 genomes]
rs55838056	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56140669	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56687496	1.00[AMR][1000 genomes]
rs57958502	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58165973	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58218403	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59034095	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59073406	1.00[AMR][1000 genomes]
rs59659337	1.00[AMR][1000 genomes]
rs59850482	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61602493	1.00[AMR][1000 genomes]
rs692377	1.00[AMR][1000 genomes]
rs7162242	0.80[AFR][1000 genomes]
rs7168916	1.00[AMR][1000 genomes]
rs7172892	1.00[AMR][1000 genomes]
rs74012258	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74012259	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74012263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74012264	1.00[AMR][1000 genomes]
rs74012273	0.85[AFR][1000 genomes]
rs74012275	0.86[AFR][1000 genomes]
rs74012276	0.91[AFR][1000 genomes]
rs8025218	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8028208	0.91[AFR][1000 genomes]
rs8029815	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8032010	1.00[AMR][1000 genomes]
rs8032335	1.00[AMR][1000 genomes]
rs8035341	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8038086	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8038185	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8039815	0.91[AFR][1000 genomes]
rs8041170	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9745301	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044438	chr15:41560160-41745480	Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
2	nsv1038923	chr15:41585028-41754890	Strong transcription Active TSS Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv1045142	chr15:41585044-41738314	Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
4	nsv1039283	chr15:41620499-41745480	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41625400-41670200	Weak transcription	Gastric	stomach
2	chr15:41625600-41659200	Weak transcription	Lung	lung
3	chr15:41625800-41665800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr15:41625800-41694200	Weak transcription	Small Intestine	intestine
5	chr15:41626000-41642000	Weak transcription	Ovary	ovary
6	chr15:41626000-41665200	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr15:41626200-41632000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:41626200-41633600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:41626200-41640600	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr15:41626200-41643400	Weak transcription	Spleen	Spleen
11	chr15:41626200-41658200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr15:41626200-41678200	Weak transcription	Liver	Liver
13	chr15:41626200-41680200	Weak transcription	Fetal Brain Male	brain
14	chr15:41626400-41677800	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr15:41626400-41678400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr15:41626600-41643400	Weak transcription	Primary B cells from cord blood	blood
17	chr15:41626800-41632200	Weak transcription	Fetal Kidney	kidney
18	chr15:41626800-41641200	Weak transcription	Placenta	Placenta
19	chr15:41626800-41642800	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr15:41626800-41643200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr15:41626800-41643400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr15:41626800-41686400	Weak transcription	Rectal Smooth Muscle	rectum
23	chr15:41627000-41630400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr15:41627000-41630600	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr15:41627000-41630800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr15:41627000-41632200	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr15:41627000-41632400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr15:41627000-41632600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr15:41627000-41632600	Weak transcription	NH-A	brain
30	chr15:41627000-41633000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr15:41627000-41633000	Weak transcription	Duodenum Mucosa	Duodenum
32	chr15:41627000-41633000	Weak transcription	Fetal Brain Female	brain
33	chr15:41627000-41633400	Weak transcription	NHLF	lung
34	chr15:41627000-41633800	Weak transcription	Fetal Lung	lung
35	chr15:41627000-41638000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr15:41627000-41672800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
37	chr15:41627200-41630400	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr15:41627200-41630400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr15:41627200-41630600	Weak transcription	Primary B cells from peripheral blood	blood
40	chr15:41627200-41630800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr15:41627200-41632000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr15:41627200-41632200	Weak transcription	A549	lung
43	chr15:41627200-41632400	Weak transcription	HSMM	muscle
44	chr15:41627200-41637000	Weak transcription	Brain Germinal Matrix	brain
45	chr15:41627200-41676800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr15:41627400-41630600	Weak transcription	HUVEC	blood vessel
47	chr15:41627400-41633600	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr15:41627400-41668000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
49	chr15:41627400-41673000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr15:41628200-41630800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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