Variant report

Variant	rs12651687
Chromosome Location	chr4:54337456-54337457
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10006090	0.83[AMR][1000 genomes]
rs10012857	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10014172	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10019914	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10021659	0.83[AMR][1000 genomes]
rs10022429	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10022604	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10023613	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10024153	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10025091	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10027090	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10028131	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10517295	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12644212	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12645252	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12645287	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12649258	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12649335	0.83[AMR][1000 genomes]
rs13435297	0.84[ASN][1000 genomes]
rs13435378	0.84[ASN][1000 genomes]
rs1473911	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs15834	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17082681	0.84[ASN][1000 genomes]
rs17082726	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17082741	0.84[ASN][1000 genomes]
rs17082744	0.83[ASN][1000 genomes]
rs17082811	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17082837	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17082847	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17326196	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17839071	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2054589	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2054591	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2137895	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2175906	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2412487	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28403386	0.84[ASN][1000 genomes]
rs28414224	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28416355	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28417191	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28418269	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28459811	0.83[AMR][1000 genomes]
rs28460231	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs28506190	0.84[ASN][1000 genomes]
rs28538880	0.84[ASN][1000 genomes]
rs28555544	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28575132	0.83[AMR][1000 genomes]
rs28588270	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28647402	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs28654213	0.84[ASN][1000 genomes]
rs28658460	0.83[AMR][1000 genomes]
rs28729231	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28778298	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28778963	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28835433	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28848852	0.84[ASN][1000 genomes]
rs3762877	0.83[AMR][1000 genomes]
rs3762878	0.83[AMR][1000 genomes]
rs3762879	0.83[AMR][1000 genomes]
rs55862905	0.84[ASN][1000 genomes]
rs56331163	0.80[ASN][1000 genomes]
rs56345181	0.84[ASN][1000 genomes]
rs56997859	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs57090564	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57165925	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs57587034	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57616867	0.83[AMR][1000 genomes]
rs57717970	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs59213600	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59311047	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60072918	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62323221	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62323222	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62323223	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62325171	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62325218	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6816889	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73156086	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9312640	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9995110	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9996049	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9996299	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9997905	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv516916	chr4:54331706-54341346	Weak transcription ZNF genes & repeats Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54295600-54339400	Weak transcription	Fetal Brain Male	brain
2	chr4:54320000-54342000	Weak transcription	Pancreas	Pancrea
3	chr4:54320000-54353200	Weak transcription	Gastric	stomach
4	chr4:54321400-54341800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr4:54321800-54339800	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr4:54327600-54347800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr4:54327800-54341800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr4:54327800-54362200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr4:54328000-54339400	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr4:54328200-54362000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr4:54328400-54362000	Weak transcription	Brain Angular Gyrus	brain
12	chr4:54328600-54339600	Weak transcription	Fetal Brain Female	brain
13	chr4:54329600-54339000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr4:54329600-54341600	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr4:54329600-54341800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr4:54329600-54342000	Weak transcription	NH-A	brain
17	chr4:54329600-54351000	Weak transcription	Adipose Nuclei	Adipose
18	chr4:54329600-54373600	Weak transcription	Brain Germinal Matrix	brain
19	chr4:54329800-54341600	Weak transcription	NHDF-Ad	bronchial
20	chr4:54329800-54374000	Weak transcription	Left Ventricle	heart
21	chr4:54330200-54340800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr4:54330200-54341800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr4:54330400-54339200	Weak transcription	Liver	Liver
24	chr4:54332000-54341800	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr4:54332000-54342400	Weak transcription	HSMM	muscle
26	chr4:54333000-54342800	Weak transcription	Esophagus	oesophagus
27	chr4:54333000-54363600	Weak transcription	Aorta	Aorta
28	chr4:54333000-54374800	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr4:54333200-54339400	Weak transcription	Fetal Intestine Large	intestine
30	chr4:54333200-54339400	Weak transcription	Placenta	Placenta
31	chr4:54333600-54340200	Weak transcription	Duodenum Mucosa	Duodenum
32	chr4:54333600-54340600	Weak transcription	Fetal Intestine Small	intestine
33	chr4:54333600-54342600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr4:54333600-54342800	Weak transcription	Fetal Stomach	stomach
35	chr4:54336400-54342800	Weak transcription	H9 Cell Line	embryonic stem cell

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