Variant report

Variant	rs11039432
Chromosome Location	chr11:47873327-47873328
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RPC155	chr11:47873324-47873947	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:47869337..47872493-chr11:47872959..47875710,4	MCF-7	breast:
2	chr11:47870685..47873439-chr11:47876355..47879304,2	MCF-7	breast:

Variant related genes	Relation type
NUP160	TF binding region
ENSG00000030066	Chromatin interaction

Extended variants
information (count: 133 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:127)

rs_ID	r²[population]
rs10458915	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1056387	0.83[ASN][1000 genomes]
rs10742817	0.83[ASN][1000 genomes]
rs10742820	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10742824	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10769285	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10769299	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10769300	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838736	0.81[ASN][1000 genomes]
rs10838739	0.83[ASN][1000 genomes]
rs10838740	0.85[ASN][1000 genomes]
rs10838746	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10838751	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10838758	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10838759	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10838760	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10838763	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10838766	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10838767	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10838768	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10838769	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10838771	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10838773	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10838774	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838775	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838776	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838777	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838782	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10838784	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10838786	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11039329	0.84[ASN][1000 genomes]
rs11039337	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11039345	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11039373	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11039376	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11039377	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11039379	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11039392	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11039401	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11039402	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11039414	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11039415	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11039419	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11039429	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11039431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11039434	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12225854	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12226431	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12286721	0.83[ASN][1000 genomes]
rs12360643	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12362318	0.83[ASN][1000 genomes]
rs12366244	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12421563	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12576933	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12785949	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1471712	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1563820	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1563821	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2046377	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2125838	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2170815	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2290851	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28617307	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2869534	0.84[EUR][1000 genomes]
rs2869541	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2904127	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3758655	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3816605	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3886262	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4539273	0.83[ASN][1000 genomes]
rs4543938	0.81[ASN][1000 genomes]
rs4752792	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4752796	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4752798	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4752858	0.84[ASN][1000 genomes]
rs4752860	0.83[ASN][1000 genomes]
rs4752865	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60833259	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61895760	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6485773	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6485775	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6485778	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6485786	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6485794	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7101597	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7102205	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7105791	0.83[ASN][1000 genomes]
rs7107792	0.83[ASN][1000 genomes]
rs7107922	0.83[ASN][1000 genomes]
rs7108479	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7110300	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7111509	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7111576	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7111606	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7112248	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7114813	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7115228	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7116320	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7116346	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7116970	0.83[ASN][1000 genomes]
rs7118747	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7121038	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7122182	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7122217	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7123952	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7124396	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7129237	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7129797	0.83[ASN][1000 genomes]
rs754434	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7925211	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7929014	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7929725	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7932703	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7933184	0.83[ASN][1000 genomes]
rs7933896	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7935521	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7935528	0.81[ASN][1000 genomes]
rs7936948	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7939420	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7941399	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7943213	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7943464	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7944084	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7945312	0.81[ASN][1000 genomes]
rs7948468	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7950674	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9633830	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][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	nsv1052397	chr11:47675470-48594256	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
2	nsv832143	chr11:47700808-47883540	Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
3	nsv530620	chr11:47765455-48664555	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
4	nsv1036992	chr11:47794621-48666024	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
5	nsv1049835	chr11:47837089-47928822	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv541036	chr11:47837089-47928822	Enhancers Transcr. at gene 5' and 3' Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11039432	FNBP4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:47870600-47873400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
2	chr11:47870600-47873400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
3	chr11:47870600-47875200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr11:47870600-47877400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr11:47870600-47879600	Weak transcription	Fetal Muscle Trunk	muscle
6	chr11:47870600-47885400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr11:47870800-47873400	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr11:47870800-47873600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr11:47870800-47873800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
10	chr11:47870800-47875200	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr11:47870800-47877600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr11:47870800-47877800	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr11:47870800-47877800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr11:47870800-47879200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr11:47870800-47879800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr11:47870800-47889400	Enhancers	Primary B cells from peripheral blood	blood
17	chr11:47871000-47873400	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr11:47871000-47873600	Enhancers	Primary T helper cells PMA-I stimulated	--
19	chr11:47871000-47873600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
20	chr11:47871000-47875200	Weak transcription	Duodenum Mucosa	Duodenum
21	chr11:47871000-47875200	Weak transcription	Fetal Kidney	kidney
22	chr11:47871000-47875200	Weak transcription	Placenta	Placenta
23	chr11:47871000-47875200	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr11:47871000-47877600	Weak transcription	K562	blood
25	chr11:47871000-47883200	Weak transcription	NHDF-Ad	bronchial
26	chr11:47871200-47877800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr11:47871600-47873400	Enhancers	Primary T killer memory cells from peripheral blood	blood
28	chr11:47872200-47875200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr11:47872200-47877600	Enhancers	Primary B cells from cord blood	blood
30	chr11:47872200-47884000	Weak transcription	Thymus	Thymus
31	chr11:47872400-47874800	Enhancers	GM12878-XiMat	blood
32	chr11:47872400-47879400	Weak transcription	Monocytes-CD14+_RO01746	blood
33	chr11:47872800-47874800	Weak transcription	Dnd41	blood
34	chr11:47872800-47875200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr11:47872800-47879000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr11:47872800-47881200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr11:47873000-47883400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr11:47873000-47884600	Weak transcription	Primary hematopoietic stem cells	blood
39	chr11:47873200-47874200	Enhancers	HepG2	liver
40	chr11:47873200-47875200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr11:47873200-47875200	Weak transcription	Fetal Thymus	thymus
42	chr11:47873200-47876000	Enhancers	A549	lung
43	chr11:47873200-47877600	Enhancers	Hela-S3	cervix
44	chr11:47873200-47879600	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr11:47873200-47880600	Weak transcription	Primary T cells from cord blood	blood

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