Variant report

Variant	rs2405902
Chromosome Location	chr15:76021385-76021386
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:76020727..76021663-chr15:76094167..76094866,2	MCF-7	breast:
2	chr15:76021238..76025261-chr15:76028458..76030884,3	MCF-7	breast:
3	chr15:76019014..76021554-chr15:76023270..76025414,2	MCF-7	breast:
4	chr15:76020529..76023375-chr15:76194921..76196751,2	MCF-7	breast:

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

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10467951	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2255254	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2255269	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2405895	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2405897	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2405898	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2593286	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2593293	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2593298	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2604411	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2675216	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2675217	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2675220	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4886456	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4886458	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4886735	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4886953	0.83[EUR][1000 genomes]
rs749161	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8032669	0.82[AMR][1000 genomes];0.87[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:33 , 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	chr15:76017800-76023200	Weak transcription	Fetal Stomach	stomach
13	chr15:76018000-76023000	Weak transcription	Spleen	Spleen
14	chr15:76018800-76023800	Weak transcription	Fetal Heart	heart
15	chr15:76018800-76024400	Weak transcription	Left Ventricle	heart
16	chr15:76019800-76023800	Weak transcription	Placenta	Placenta
17	chr15:76020000-76025000	Weak transcription	Esophagus	oesophagus
18	chr15:76020200-76025200	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr15:76020400-76021400	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr15:76020600-76021400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr15:76020600-76021400	Weak transcription	Fetal Muscle Trunk	muscle
22	chr15:76020600-76022400	Enhancers	Fetal Muscle Leg	muscle
23	chr15:76020600-76023600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr15:76020600-76030200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr15:76020800-76023400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr15:76020800-76024000	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr15:76020800-76026400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr15:76021000-76021400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr15:76021000-76023400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr15:76021000-76023800	Weak transcription	Stomach Smooth Muscle	stomach
31	chr15:76021000-76024200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr15:76021000-76030200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr15:76021000-76030200	Weak transcription	HMEC	breast

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