Variant report

Variant	rs28537079
Chromosome Location	chr15:40367273-40367274
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	chr15:40331393..40333306-chr15:40366048..40367835,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000248508	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11638521	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16970291	0.82[ASN][1000 genomes]
rs16970319	0.88[ASN][1000 genomes]
rs28361302	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28371998	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28379715	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28479712	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28587891	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28605815	0.97[ASN][1000 genomes]
rs28620926	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4924415	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4924416	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7181230	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9972424	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9972442	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv428635	chr15:40274500-40436293	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40346000-40367400	Weak transcription	K562	blood
2	chr15:40346200-40372800	Weak transcription	Fetal Kidney	kidney
3	chr15:40359000-40368000	Weak transcription	Ovary	ovary
4	chr15:40361800-40368400	Weak transcription	HMEC	breast
5	chr15:40362200-40367600	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr15:40362200-40367600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr15:40362200-40368800	Weak transcription	Osteobl	bone
8	chr15:40362200-40372600	Weak transcription	Small Intestine	intestine
9	chr15:40362200-40373000	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr15:40362200-40373600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr15:40362400-40367400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr15:40362400-40367600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr15:40362400-40368000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr15:40362400-40369200	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr15:40362400-40372800	Weak transcription	Stomach Smooth Muscle	stomach
16	chr15:40362400-40374200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:40362600-40367600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr15:40362600-40367600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr15:40362600-40367600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr15:40362600-40367600	Weak transcription	Spleen	Spleen
21	chr15:40362600-40367600	Weak transcription	A549	lung
22	chr15:40362600-40370800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr15:40362600-40373800	Weak transcription	Aorta	Aorta
24	chr15:40362800-40367400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr15:40362800-40367600	Weak transcription	Hela-S3	cervix
26	chr15:40362800-40372400	Weak transcription	GM12878-XiMat	blood
27	chr15:40363000-40367400	Weak transcription	HepG2	liver
28	chr15:40364600-40373000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr15:40364800-40376800	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr15:40365000-40367400	Weak transcription	Duodenum Mucosa	Duodenum
31	chr15:40365000-40367400	Weak transcription	Lung	lung
32	chr15:40365000-40367600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr15:40365000-40368800	Enhancers	Primary hematopoietic stem cells short term culture	blood
34	chr15:40365000-40373200	Weak transcription	Left Ventricle	heart
35	chr15:40365200-40367400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr15:40365200-40367400	Weak transcription	HUVEC	blood vessel
37	chr15:40365200-40368000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
38	chr15:40365200-40368800	Weak transcription	Placenta	Placenta
39	chr15:40365400-40367600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
40	chr15:40365600-40367400	Weak transcription	Gastric	stomach
41	chr15:40365600-40369000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr15:40365600-40372400	Weak transcription	Fetal Heart	heart
43	chr15:40365600-40374000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr15:40365800-40367800	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr15:40366200-40367600	Weak transcription	Primary hematopoietic stem cells	blood
46	chr15:40366400-40367400	Weak transcription	Primary neutrophils fromperipheralblood	blood
47	chr15:40366400-40367400	Weak transcription	Monocytes-CD14+_RO01746	blood
48	chr15:40366400-40373000	Weak transcription	Primary B cells from cord blood	blood
49	chr15:40366600-40368200	Enhancers	Pancreas	Pancrea
50	chr15:40366600-40368600	Enhancers	Fetal Thymus	thymus

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