Variant report

Variant	rs12553155
Chromosome Location	chr9:100048417-100048418
allele	A/C
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	E2F4	chr9:100048205-100048427	MCF10A-Er-Src	breast:	n/a	n/a
2	KAP1	chr9:100048334-100048800	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:100048229..100050188-chr9:100053793..100055688,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000255036	TF binding region

Extended variants
information (count: 116 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1048451	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10817337	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10817384	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10817491	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10817504	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10981367	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10981434	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10981444	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10981460	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10981688	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10981701	0.94[ASN][1000 genomes]
rs10981784	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10981800	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10981801	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1123379	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11581	0.87[EUR][1000 genomes]
rs12115447	0.90[EUR][1000 genomes]
rs12115448	0.89[EUR][1000 genomes]
rs12377538	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12378350	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12550923	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12551740	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12551818	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12552101	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12552659	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12553213	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12553259	0.89[EUR][1000 genomes]
rs12554363	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12555277	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13285567	0.83[EUR][1000 genomes]
rs13286510	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13287082	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13289134	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13289813	0.84[EUR][1000 genomes]
rs13292715	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13300328	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13301045	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13301965	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1531440	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1564048	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1564050	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16919506	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16919656	0.86[EUR][1000 genomes]
rs16919661	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16919671	0.90[EUR][1000 genomes]
rs16919675	0.90[EUR][1000 genomes]
rs2045729	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2045730	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2045731	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2279113	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2290933	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2306090	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2306092	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2306094	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2401384	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34135027	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34183765	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34355647	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34476799	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34564795	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34609282	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34616426	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34754033	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34870571	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34905303	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34954690	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35066943	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35123877	0.86[EUR][1000 genomes]
rs35534888	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35590659	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35623544	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35737497	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35778461	0.85[EUR][1000 genomes]
rs35778718	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35788892	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3747490	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3747491	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3747492	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3747495	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3747498	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3747499	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3747504	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3747506	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3747507	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3747510	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3747511	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3827484	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3827485	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3994560	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs41316960	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4742686	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4742688	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4743069	0.84[EUR][1000 genomes]
rs4743070	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4743073	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4743082	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4743083	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4743085	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4743086	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs60681062	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62556659	0.83[EUR][1000 genomes]
rs62557460	0.88[EUR][1000 genomes]
rs62557461	0.88[EUR][1000 genomes]
rs62557462	0.89[EUR][1000 genomes]
rs62557463	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6478038	0.80[EUR][1000 genomes]
rs6478039	0.80[EUR][1000 genomes]
rs7020530	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7038496	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7041222	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73565808	0.86[EUR][1000 genomes]
rs7872669	0.84[EUR][1000 genomes]
rs7874652	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs898869	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs898870	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9696058	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12553155	VN1R51P	cis	Thyroid	GTEx

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100025800-100050200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:100035000-100059600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:100036800-100052200	Weak transcription	Stomach Mucosa	stomach
4	chr9:100037200-100050200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr9:100038200-100050600	Weak transcription	Esophagus	oesophagus
6	chr9:100038800-100050400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr9:100039000-100050600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr9:100039000-100052800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr9:100039000-100053000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr9:100039000-100054200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr9:100039200-100052800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr9:100039200-100056400	Weak transcription	Small Intestine	intestine
13	chr9:100039600-100055000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr9:100039600-100055600	Weak transcription	NH-A	brain
15	chr9:100039800-100050400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr9:100039800-100051800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr9:100039800-100055600	Weak transcription	NHLF	lung
18	chr9:100040800-100055600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr9:100041000-100050400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr9:100041200-100050600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr9:100041400-100059600	Weak transcription	Fetal Brain Male	brain
22	chr9:100041600-100050000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr9:100041600-100052800	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr9:100041800-100049200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr9:100042600-100049000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr9:100043200-100050200	Weak transcription	Right Ventricle	heart
27	chr9:100043400-100050600	Weak transcription	Thymus	Thymus
28	chr9:100043600-100050000	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr9:100043800-100049600	Weak transcription	Fetal Brain Female	brain
30	chr9:100043800-100050000	Weak transcription	Duodenum Mucosa	Duodenum
31	chr9:100043800-100052800	Weak transcription	Hela-S3	cervix
32	chr9:100044000-100049800	Weak transcription	Osteobl	bone
33	chr9:100044000-100050000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr9:100044000-100050200	Weak transcription	Brain Germinal Matrix	brain
35	chr9:100044000-100050400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr9:100044000-100050600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr9:100044000-100050600	Weak transcription	Colonic Mucosa	Colon
38	chr9:100044000-100052800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr9:100044200-100050000	Weak transcription	Brain Angular Gyrus	brain
40	chr9:100044200-100050200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr9:100044200-100050400	Weak transcription	Colon Smooth Muscle	Colon
42	chr9:100044200-100050400	Weak transcription	Gastric	stomach
43	chr9:100044200-100050400	Weak transcription	Lung	lung
44	chr9:100044200-100050400	Weak transcription	Rectal Smooth Muscle	rectum
45	chr9:100044200-100050800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr9:100044200-100052400	Weak transcription	Primary monocytes fromperipheralblood	blood
47	chr9:100044200-100055000	Weak transcription	Psoas Muscle	Psoas
48	chr9:100045800-100049000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr9:100046000-100049000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr9:100046000-100050000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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