Variant report

Variant	rs28398053
Chromosome Location	chr15:76023249-76023250
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:76021238..76025261-chr15:76028458..76030884,3	MCF-7	breast:
2	chr15:76012704..76015019-chr15:76022800..76024419,2	MCF-7	breast:
3	chr15:76022261..76024387-chr15:76088490..76090434,2	MCF-7	breast:
4	chr15:76020529..76023375-chr15:76194921..76196751,2	MCF-7	breast:
5	chr15:76021736..76024634-chr15:76026770..76028436,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260288	Chromatin interaction
ENSG00000256530	Chromatin interaction
ENSG00000167196	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs12102136	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16967294	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16967508	1.00[EUR][1000 genomes]
rs28372561	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28395383	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28396803	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28412110	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28413637	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28414758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28420558	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28432282	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28447345	1.00[EUR][1000 genomes]
rs28450740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28461701	1.00[EUR][1000 genomes]
rs28504376	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28505697	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28510991	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28519586	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28521156	1.00[EUR][1000 genomes]
rs28530778	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28533248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28550881	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28567605	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28628290	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28628820	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28645531	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28664638	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28677951	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28695912	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28711283	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28727341	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3991368	1.00[AMR][1000 genomes]
rs56686272	1.00[AMR][1000 genomes]
rs57267837	1.00[AMR][1000 genomes]
rs58167659	1.00[AMR][1000 genomes]
rs58689645	1.00[AMR][1000 genomes]
rs58840197	1.00[EUR][1000 genomes]
rs59944002	1.00[AMR][1000 genomes]
rs60159975	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60465775	1.00[AMR][1000 genomes]
rs60544586	1.00[AMR][1000 genomes]
rs73439281	1.00[AMR][1000 genomes]
rs73439290	1.00[AMR][1000 genomes]
rs73439302	1.00[AMR][1000 genomes]
rs73442996	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73444997	1.00[AMR][1000 genomes]
rs74026527	1.00[EUR][1000 genomes]
rs8026666	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8033538	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8041384	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3445070	chr15:75623136-76045948	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
2	nsv531903	chr15:75889302-76342128	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
3	nsv527186	chr15:75924443-76107730	Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	69 gene(s)	inside rSNPs	diseases
4	nsv904392	chr15:75930757-76039262	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
5	nsv904394	chr15:75948671-76039262	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv904396	chr15:75961518-76071105	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76013600-76025000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr15:76013800-76029800	Weak transcription	HSMM	muscle
3	chr15:76016600-76023600	Weak transcription	Brain Angular Gyrus	brain
4	chr15:76016600-76023800	Weak transcription	Ovary	ovary
5	chr15:76016600-76024000	Weak transcription	Brain Germinal Matrix	brain
6	chr15:76016800-76023600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:76016800-76023800	Weak transcription	Right Ventricle	heart
8	chr15:76016800-76025200	Weak transcription	Pancreas	Pancrea
9	chr15:76017200-76023600	Weak transcription	Colon Smooth Muscle	Colon
10	chr15:76017200-76023600	Weak transcription	Fetal Lung	lung
11	chr15:76017600-76023600	Weak transcription	Fetal Intestine Small	intestine
12	chr15:76018800-76023800	Weak transcription	Fetal Heart	heart
13	chr15:76018800-76024400	Weak transcription	Left Ventricle	heart
14	chr15:76019800-76023800	Weak transcription	Placenta	Placenta
15	chr15:76020000-76025000	Weak transcription	Esophagus	oesophagus
16	chr15:76020200-76025200	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr15:76020600-76023600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr15:76020600-76030200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr15:76020800-76023400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr15:76020800-76024000	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr15:76020800-76026400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr15:76021000-76023400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr15:76021000-76023800	Weak transcription	Stomach Smooth Muscle	stomach
24	chr15:76021000-76024200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr15:76021000-76030200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr15:76021000-76030200	Weak transcription	HMEC	breast
27	chr15:76021400-76023800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr15:76021400-76029600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr15:76021600-76023800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr15:76022000-76028800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr15:76022400-76023600	Weak transcription	Fetal Muscle Leg	muscle
32	chr15:76022800-76023800	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr15:76023000-76026000	Enhancers	Fetal Muscle Trunk	muscle
34	chr15:76023200-76023400	Genic enhancers	Fetal Stomach	stomach
35	chr15:76023200-76023800	Weak transcription	Spleen	Spleen

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