Variant report

Variant	rs983474
Chromosome Location	chr3:100505588-100505589
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11716316	0.85[JPT][hapmap]
rs12496951	0.82[JPT][hapmap]
rs12696195	0.81[CHB][hapmap]
rs1394077	0.80[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];0.89[JPT][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1503839	0.81[JPT][hapmap];0.82[LWK][hapmap]
rs1503845	0.82[JPT][hapmap]
rs16842822	0.95[CHB][hapmap];0.86[CHD][hapmap];0.85[JPT][hapmap];0.94[ASN][1000 genomes]
rs16842845	0.82[JPT][hapmap]
rs1847391	0.82[JPT][hapmap]
rs3736534	0.82[CHD][hapmap]
rs544500	0.82[CHD][hapmap]
rs754462	0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7609779	1.00[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.81[TSI][hapmap];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7612334	0.84[JPT][hapmap]
rs7613610	0.89[CEU][hapmap];0.91[CHB][hapmap];0.89[CHD][hapmap];0.92[GIH][hapmap];0.95[JPT][hapmap];0.80[MEX][hapmap];0.88[TSI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7632038	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7642942	0.86[CHB][hapmap];0.89[CHD][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs764684	0.82[JPT][hapmap]
rs9824346	0.82[JPT][hapmap]
rs9842968	0.94[ASW][hapmap];0.95[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.93[MKK][hapmap];0.93[TSI][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9850273	0.94[ASW][hapmap];0.89[CEU][hapmap];0.95[CHB][hapmap];0.89[CHD][hapmap];0.92[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.82[YRI][hapmap];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs989793	0.84[JPT][hapmap];0.87[YRI][hapmap]
rs989794	0.82[JPT][hapmap];0.84[YRI][hapmap]
rs989795	0.82[JPT][hapmap];0.80[LWK][hapmap];0.84[YRI][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs983474	FAM55C	cis	parietal	SCAN
rs983474	TFG	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100475600-100520000	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr3:100494800-100523400	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr3:100496800-100511200	Weak transcription	Aorta	Aorta
4	chr3:100501200-100516600	Weak transcription	HSMM	muscle
5	chr3:100502200-100518600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr3:100502400-100530400	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:100502600-100516800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr3:100503600-100505800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr3:100504000-100506000	Strong transcription	Stomach Smooth Muscle	stomach
10	chr3:100504400-100505600	ZNF genes & repeats	Osteobl	bone
11	chr3:100504400-100505800	ZNF genes & repeats	Fetal Lung	lung
12	chr3:100505000-100506400	Weak transcription	NHDF-Ad	bronchial
13	chr3:100505000-100506800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:100505000-100510400	Weak transcription	Psoas Muscle	Psoas
15	chr3:100505000-100515400	Weak transcription	Adipose Nuclei	Adipose
16	chr3:100505000-100515400	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr3:100505000-100516600	Weak transcription	Left Ventricle	heart
18	chr3:100505200-100507000	Weak transcription	Fetal Muscle Leg	muscle
19	chr3:100505200-100508000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr3:100505200-100508000	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr3:100505200-100510800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr3:100505200-100512800	Weak transcription	HSMMtube	muscle
23	chr3:100505200-100515200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr3:100505200-100515200	Weak transcription	Fetal Stomach	stomach
25	chr3:100505200-100515400	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr3:100505200-100515400	Weak transcription	HUVEC	blood vessel
27	chr3:100505200-100558200	Weak transcription	Ovary	ovary
28	chr3:100505200-100582800	Weak transcription	Fetal Muscle Trunk	muscle

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