Variant report

Variant	rs11039392
Chromosome Location	chr11:47798753-47798754
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:47788323..47791223-chr11:47797939..47799685,3	K562	blood:
2	chr11:47788144..47790498-chr11:47798185..47799827,2	K562	blood:
3	chr11:47774748..47776912-chr11:47797365..47799595,2	K562	blood:
4	chr11:47796732..47798783-chr11:47798961..47800797,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109920	Chromatin interaction

Extended variants
information (count: 145 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:140)

rs_ID	r²[population]
rs10458914	0.83[ASN][1000 genomes]
rs10458915	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1056387	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10742817	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10742820	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10742824	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10769285	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10769299	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10769300	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838736	0.89[ASN][1000 genomes]
rs10838739	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10838740	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10838741	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10838745	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10838746	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10838751	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10838758	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10838759	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10838760	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10838763	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10838766	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10838767	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10838768	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10838769	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10838771	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10838773	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10838774	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838775	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838776	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838777	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838782	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10838784	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10838786	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11039329	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11039336	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11039337	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11039345	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11039354	0.87[EUR][1000 genomes]
rs11039373	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11039376	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11039377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11039379	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11039398	0.83[ASN][1000 genomes]
rs11039401	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11039402	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11039409	0.81[ASN][1000 genomes]
rs11039414	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11039415	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11039419	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11039429	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11039431	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11039432	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11039434	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12223593	0.83[ASN][1000 genomes]
rs12225854	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12226431	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12286721	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12360643	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12362318	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12366244	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12421563	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12576933	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12577383	0.83[ASN][1000 genomes]
rs12785949	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1471712	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1563820	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1563821	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2046377	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2125838	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2170815	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2290851	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28617307	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2869534	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2869541	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2904127	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3758655	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3816605	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3886262	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4539273	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4543938	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4752792	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4752796	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4752798	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4752858	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4752860	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4752865	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60833259	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61895760	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6485763	0.86[ASN][1000 genomes]
rs6485773	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6485775	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6485778	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6485786	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7101597	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7102205	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7105791	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7107792	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7107922	0.91[ASN][1000 genomes]
rs7108479	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7110300	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7111509	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7111576	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7111606	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7112248	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7114011	0.83[ASN][1000 genomes]
rs7114813	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7115228	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7116320	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7116346	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7116970	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7118747	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7121038	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7122182	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7122217	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7123952	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7124396	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7129237	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7129797	0.91[ASN][1000 genomes]
rs7131262	0.83[ASN][1000 genomes]
rs754434	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7925211	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7927445	0.83[ASN][1000 genomes]
rs7929014	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7929725	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7932703	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7933184	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7933896	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7935344	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7935521	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7935528	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7936948	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7939420	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7941399	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7943213	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7943464	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7944084	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7945312	0.89[ASN][1000 genomes]
rs7948468	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7950674	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9633830	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[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	nsv469858	chr11:47647515-47837172	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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
5	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11039392	FNBP4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:47790000-47798800	Weak transcription	Colonic Mucosa	Colon
2	chr11:47790000-47800200	Weak transcription	Psoas Muscle	Psoas
3	chr11:47790000-47800200	Weak transcription	Stomach Mucosa	stomach
4	chr11:47790000-47806800	Weak transcription	Esophagus	oesophagus
5	chr11:47790000-47837800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr11:47790200-47798800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr11:47790200-47798800	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr11:47790200-47798800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr11:47790200-47798800	Weak transcription	Right Ventricle	heart
10	chr11:47790200-47799000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr11:47790200-47801000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr11:47790200-47801600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr11:47790200-47805200	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr11:47790200-47869200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr11:47790400-47798800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr11:47790400-47798800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr11:47790400-47798800	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr11:47790400-47798800	Weak transcription	Brain Substantia Nigra	brain
19	chr11:47790400-47798800	Weak transcription	Fetal Kidney	kidney
20	chr11:47790400-47798800	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr11:47790400-47798800	Weak transcription	HSMMtube	muscle
22	chr11:47790400-47798800	Weak transcription	NH-A	brain
23	chr11:47790400-47799000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr11:47790400-47799000	Weak transcription	Brain Cingulate Gyrus	brain
25	chr11:47790400-47800000	Weak transcription	NHDF-Ad	bronchial
26	chr11:47790400-47800200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr11:47790400-47800200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr11:47790400-47800400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
29	chr11:47790400-47800400	Weak transcription	Brain Angular Gyrus	brain
30	chr11:47790400-47800400	Weak transcription	Fetal Brain Male	brain
31	chr11:47790400-47800600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr11:47790800-47832200	Weak transcription	Small Intestine	intestine
33	chr11:47795200-47845600	Strong transcription	Fetal Muscle Trunk	muscle
34	chr11:47795400-47804400	Strong transcription	Fetal Intestine Small	intestine
35	chr11:47795400-47866600	Strong transcription	Fetal Thymus	thymus
36	chr11:47795400-47868400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr11:47795600-47808200	Strong transcription	Primary B cells from cord blood	blood
38	chr11:47795600-47810600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr11:47796000-47812800	Strong transcription	Fetal Muscle Leg	muscle
40	chr11:47796000-47816800	Strong transcription	GM12878-XiMat	blood
41	chr11:47796200-47803400	Strong transcription	Primary T cells from cord blood	blood
42	chr11:47796200-47808200	Strong transcription	Stomach Smooth Muscle	stomach
43	chr11:47796200-47810400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr11:47796200-47811200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr11:47796200-47813600	Strong transcription	Adipose Nuclei	Adipose
46	chr11:47796200-47834000	Strong transcription	Fetal Stomach	stomach
47	chr11:47796200-47837800	Strong transcription	HUES6 Cell Line	embryonic stem cell
48	chr11:47796200-47843600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr11:47796200-47845200	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr11:47796200-47845600	Strong transcription	Placenta	Placenta

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