Variant report

Variant	rs656623
Chromosome Location	chr11:17219179-17219180
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:17217666..17220812-chr11:17226929..17230937,4	MCF-7	breast:
2	chr11:17206803..17209141-chr11:17217436..17220407,2	MCF-7	breast:
3	chr11:17219025..17224856-chr11:17226491..17230586,7	K562	blood:
4	chr11:17219025..17222560-chr11:17227070..17230586,4	K562	blood:

Variant related genes	Relation type
ENSG00000011405	Chromatin interaction
ENSG00000070081	Chromatin interaction

Extended variants
information (count: 120 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs10741724	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10766381	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10832733	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10832734	0.82[AMR][1000 genomes]
rs10832735	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10832736	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10832739	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10832743	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10832745	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10832746	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10832747	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10832748	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11024143	0.83[EUR][1000 genomes]
rs11024148	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11024158	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11024159	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11024163	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11024204	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11024207	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11024208	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11024227	0.82[EUR][1000 genomes]
rs1125737	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11821773	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12280930	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12286505	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1236309	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1236310	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12804000	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1685932	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1979603	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1989405	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2008905	0.82[EUR][1000 genomes]
rs2052188	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs214900	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs214901	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs214904	0.80[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs214906	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs214907	0.82[ASN][1000 genomes]
rs214909	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs214910	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs214911	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs214912	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs214913	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs214914	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs214915	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs214916	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs214917	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs214918	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs214919	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs214920	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs214921	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs214922	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs214923	0.83[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs214925	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs214926	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs214927	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs214933	0.86[ASN][1000 genomes]
rs214935	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs214936	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs214937	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs214939	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs214940	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2171615	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35933265	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4356203	0.83[EUR][1000 genomes]
rs4509731	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs511119	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs512852	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs527810	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs536628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs542274	0.96[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs545773	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs550667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs553711	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs567033	0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs577207	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs589319	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59192183	0.84[EUR][1000 genomes]
rs594034	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs598946	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs603618	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61357262	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs615358	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs618331	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61881888	0.80[EUR][1000 genomes]
rs620241	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs621246	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs635802	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6486352	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6486354	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6486358	0.81[EUR][1000 genomes]
rs651513	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs662711	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs664382	0.84[ASN][1000 genomes]
rs667984	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs677042	0.85[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs677540	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs680205	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7101686	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7106705	0.84[EUR][1000 genomes]
rs7107283	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7118006	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7118443	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7123301	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7125607	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7342262	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7396382	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7396958	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7478986	0.91[EUR][1000 genomes]
rs7925692	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7932916	0.85[EUR][1000 genomes]
rs7935219	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7937176	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7940418	0.89[EUR][1000 genomes]
rs7946010	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7949699	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[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	nsv467711	chr11:17027555-17320797	Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv553568	chr11:17027555-17320797	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv469762	chr11:17170690-17320691	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers 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	24 gene(s)	inside rSNPs	diseases
4	nsv482905	chr11:17170690-17320691	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs656623	OR7E14P	cis	Nerve Tibial	GTEx
rs656623	NUCB2	Cis_1M	lymphoblastoid	RTeQTL
rs656623	OR7E14P	cis	Esophagus Mucosa	GTEx

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:17156600-17219200	Weak transcription	HSMMtube	muscle
2	chr11:17167400-17228000	Weak transcription	Fetal Thymus	thymus
3	chr11:17184800-17228800	Weak transcription	Esophagus	oesophagus
4	chr11:17187000-17228000	Weak transcription	Colonic Mucosa	Colon
5	chr11:17187200-17226800	Weak transcription	Small Intestine	intestine
6	chr11:17191000-17220600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr11:17191200-17227800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr11:17194200-17228000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr11:17197600-17228000	Weak transcription	Brain Angular Gyrus	brain
10	chr11:17203000-17228800	Weak transcription	Spleen	Spleen
11	chr11:17205400-17220200	Weak transcription	Aorta	Aorta
12	chr11:17207400-17228200	Weak transcription	Colon Smooth Muscle	Colon
13	chr11:17208800-17227400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr11:17209400-17228000	Weak transcription	K562	blood
15	chr11:17210000-17220200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr11:17210200-17220400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr11:17210400-17227400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr11:17210600-17228200	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr11:17210600-17228200	Weak transcription	Brain Substantia Nigra	brain
20	chr11:17210800-17222400	Weak transcription	Psoas Muscle	Psoas
21	chr11:17210800-17228000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr11:17212600-17228600	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr11:17213000-17227400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr11:17213200-17228200	Weak transcription	Brain Hippocampus Middle	brain
25	chr11:17213400-17221200	Weak transcription	GM12878-XiMat	blood
26	chr11:17214400-17228000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr11:17214800-17222200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr11:17215200-17228000	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr11:17215200-17228000	Weak transcription	Fetal Kidney	kidney
30	chr11:17216000-17219800	Weak transcription	Pancreas	Pancrea
31	chr11:17216000-17220000	Weak transcription	Stomach Smooth Muscle	stomach
32	chr11:17216000-17220200	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr11:17216000-17221400	Weak transcription	Primary B cells from cord blood	blood
34	chr11:17216000-17223200	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr11:17216000-17223400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr11:17216000-17223400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr11:17216000-17223800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr11:17216000-17223800	Weak transcription	Gastric	stomach
39	chr11:17216000-17223800	Weak transcription	Right Ventricle	heart
40	chr11:17216000-17224000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr11:17216000-17224200	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr11:17216000-17224200	Weak transcription	Adipose Nuclei	Adipose
43	chr11:17216000-17224200	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr11:17216000-17226000	Weak transcription	Dnd41	blood
45	chr11:17216000-17226200	Weak transcription	Primary T helper cells PMA-I stimulated	--
46	chr11:17216000-17227400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr11:17216000-17227400	Weak transcription	Primary T cells fromperipheralblood	blood
48	chr11:17216000-17227400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr11:17216000-17227600	Weak transcription	Liver	Liver
50	chr11:17216000-17228000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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