Variant report

Variant	rs28736339
Chromosome Location	chr11:108659524-108659525
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	chr11:108658928..108659997-chr11:108741741..108742558,3	MCF-7	breast:

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10502103	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10749924	0.87[ASN][1000 genomes]
rs10749925	0.87[ASN][1000 genomes]
rs11212824	0.81[ASN][1000 genomes]
rs11828110	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12574567	0.90[ASN][1000 genomes]
rs12574721	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12574758	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12575278	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12577382	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12577980	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12785398	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12785439	0.96[ASN][1000 genomes]
rs12786616	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12790940	0.83[AMR][1000 genomes]
rs12794048	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12794597	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12795663	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12796331	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12800516	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12800726	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12801974	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12802313	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12803616	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12808060	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12808674	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1462787	0.98[ASN][1000 genomes]
rs1482268	0.87[ASN][1000 genomes]
rs17108571	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17108579	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17108608	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17108703	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17108744	0.83[ASN][1000 genomes]
rs2061681	0.96[ASN][1000 genomes]
rs2553749	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2553750	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2553751	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2615727	0.95[ASN][1000 genomes]
rs2615756	0.93[ASN][1000 genomes]
rs2726885	0.98[ASN][1000 genomes]
rs2726896	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34138098	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34180595	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34350110	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34354308	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34363971	0.81[ASN][1000 genomes]
rs34451436	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34593113	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34805458	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34848528	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34942750	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35085871	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35244070	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35430545	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35517426	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35525430	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35754206	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35777838	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs36006135	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs36034048	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36043878	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4317954	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs57014838	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57484308	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7107825	0.86[ASN][1000 genomes]
rs71489913	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs71489916	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs71489918	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs71489919	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71489922	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71489925	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71489928	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71489929	0.81[ASN][1000 genomes]
rs7930675	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs898972	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs970162	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs970164	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][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	nsv1052254	chr11:108122683-108845008	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv541164	chr11:108122683-108845008	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv898386	chr11:108409442-108831875	Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv898388	chr11:108440814-108724639	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:108605800-108663800	Weak transcription	K562	blood
2	chr11:108629000-108661800	Weak transcription	Left Ventricle	heart
3	chr11:108644400-108675400	Weak transcription	Primary T cells from cord blood	blood
4	chr11:108651000-108659600	Weak transcription	GM12878-XiMat	blood
5	chr11:108655000-108659600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr11:108656000-108660600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr11:108656400-108660400	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr11:108657600-108659800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr11:108657600-108661800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr11:108657600-108662200	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr11:108657800-108659600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr11:108657800-108659600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr11:108657800-108688200	Weak transcription	NHEK	skin
14	chr11:108658200-108659600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr11:108658600-108660600	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr11:108658800-108659800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr11:108658800-108659800	Enhancers	Osteobl	bone
18	chr11:108658800-108660200	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr11:108658800-108660600	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr11:108659000-108659800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr11:108659200-108659800	Enhancers	H1 Cell Line	embryonic stem cell
22	chr11:108659200-108659800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr11:108659200-108659800	Enhancers	Primary T cells fromperipheralblood	blood
24	chr11:108659200-108659800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr11:108659200-108659800	Enhancers	Esophagus	oesophagus
26	chr11:108659200-108660000	Enhancers	Primary B cells from peripheral blood	blood
27	chr11:108659400-108659800	Enhancers	iPS-18 Cell Line	embryonic stem cell
28	chr11:108659400-108659800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr11:108659400-108659800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr11:108659400-108659800	Enhancers	Primary T helper cells fromperipheralblood	blood
31	chr11:108659400-108659800	Enhancers	Ovary	ovary
32	chr11:108659400-108659800	Enhancers	Psoas Muscle	Psoas
33	chr11:108659400-108659800	Enhancers	HepG2	liver
34	chr11:108659400-108660000	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr11:108659400-108660000	Enhancers	iPS-15b Cell Line	embryonic stem cell
36	chr11:108659400-108660000	Enhancers	Adipose Nuclei	Adipose
37	chr11:108659400-108660000	Enhancers	Fetal Heart	heart

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