Variant report

Variant	rs28880667
Chromosome Location	chr15:93393284-93393285
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:93391663..93395666-chr15:93425235..93428087,5	K562	blood:
2	chr15:93363804..93365342-chr15:93390332..93393307,2	MCF-7	breast:
3	chr15:93350402..93355574-chr15:93391373..93396356,7	K562	blood:
4	chr15:93392783..93395116-chr15:93420649..93423095,2	K562	blood:
5	chr15:93392816..93394447-chr15:93428512..93430303,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185442	Chromatin interaction
ENSG00000173575	Chromatin interaction
ENSG00000258922	Chromatin interaction
ENSG00000272888	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11074108	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11074109	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11074110	0.91[ASN][1000 genomes]
rs11074111	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12591890	0.94[ASN][1000 genomes]
rs12592319	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs28360722	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28445686	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28607270	0.84[AFR][1000 genomes]
rs28734059	0.82[AMR][1000 genomes]
rs4628913	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4777740	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4777741	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4777742	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4778045	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7180599	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7181523	0.94[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs7181781	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8026478	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs8027176	0.80[AMR][1000 genomes]
rs8028071	0.80[AMR][1000 genomes]
rs8029902	0.94[ASN][1000 genomes]
rs8043390	0.90[AFR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases
2	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
3	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	151 gene(s)	inside rSNPs	diseases
4	nsv530846	chr15:93323949-94030462	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
5	nsv948881	chr15:93383740-93603608	Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	91 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93383800-93396600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:93384000-93394600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:93386800-93393800	Enhancers	Primary B cells from peripheral blood	blood
4	chr15:93388600-93393600	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr15:93388600-93393600	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr15:93388800-93393600	Enhancers	Primary B cells from cord blood	blood
7	chr15:93388800-93393600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr15:93388800-93393600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr15:93389000-93393600	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr15:93390600-93399000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr15:93390800-93393600	Enhancers	K562	blood
12	chr15:93391400-93393400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
13	chr15:93391400-93393600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
14	chr15:93391400-93393600	Enhancers	Primary T killer memory cells from peripheral blood	blood
15	chr15:93391400-93393600	Enhancers	Fetal Thymus	thymus
16	chr15:93391600-93393400	Enhancers	Spleen	Spleen
17	chr15:93391600-93393600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
18	chr15:93391600-93393800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr15:93391600-93393800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
20	chr15:93391800-93393400	Enhancers	Primary hematopoietic stem cells	blood
21	chr15:93392200-93393400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
22	chr15:93392200-93393400	Enhancers	Thymus	Thymus
23	chr15:93392600-93393600	Enhancers	Primary T cells from cord blood	blood
24	chr15:93392600-93393600	Enhancers	Primary T cells fromperipheralblood	blood
25	chr15:93392800-93393400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
26	chr15:93393000-93393400	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr15:93393000-93396000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr15:93393000-93396000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr15:93393000-93399000	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr15:93393200-93394000	ZNF genes & repeats	GM12878-XiMat	blood

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