Variant report

Variant	rs7632038
Chromosome Location	chr3:100531539-100531540
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11716316	0.85[JPT][hapmap]
rs12496951	0.82[ASW][hapmap];0.85[CHD][hapmap];0.82[JPT][hapmap];0.85[LWK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs12696195	0.81[CHB][hapmap]
rs1394077	0.80[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];0.89[JPT][hapmap];0.94[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1503839	0.84[CHD][hapmap];0.82[JPT][hapmap]
rs1503845	0.85[CHD][hapmap];0.82[JPT][hapmap];0.92[YRI][hapmap]
rs16842822	0.95[CHB][hapmap];0.92[CHD][hapmap];0.85[JPT][hapmap];0.93[ASN][1000 genomes]
rs16842845	0.85[CHD][hapmap];0.82[JPT][hapmap]
rs1847391	0.82[JPT][hapmap]
rs3736534	0.87[CHD][hapmap]
rs544500	0.87[CHD][hapmap]
rs754462	0.86[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7609779	0.88[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.86[MKK][hapmap];0.92[TSI][hapmap];0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7612334	0.85[JPT][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes]
rs7613610	0.94[CEU][hapmap];0.91[CHB][hapmap];0.94[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7642942	0.86[CHB][hapmap];0.94[CHD][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs764684	0.85[CHD][hapmap];0.82[JPT][hapmap];0.92[YRI][hapmap]
rs9824346	0.82[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes]
rs983474	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]
rs9840549	0.83[YRI][hapmap]
rs9842968	0.95[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.82[TSI][hapmap];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9850273	0.94[CEU][hapmap];0.95[CHB][hapmap];0.94[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9879088	0.92[YRI][hapmap]
rs989793	0.85[JPT][hapmap]
rs989794	0.82[JPT][hapmap]
rs989795	0.85[CHD][hapmap];0.82[JPT][hapmap]

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	esv1798221	chr3:100518650-100536284	Genic enhancers Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7632038	TFG	Cis_1M	lymphoblastoid	RTeQTL
rs7632038	FAM55C	cis	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100505200-100558200	Weak transcription	Ovary	ovary
2	chr3:100505200-100582800	Weak transcription	Fetal Muscle Trunk	muscle
3	chr3:100506000-100548400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr3:100514200-100547600	Weak transcription	Fetal Muscle Leg	muscle
5	chr3:100516000-100572200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:100517400-100594400	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr3:100518800-100543000	Weak transcription	Fetal Stomach	stomach
8	chr3:100524200-100537200	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr3:100529000-100531600	Genic enhancers	NHDF-Ad	bronchial
10	chr3:100530000-100535200	Weak transcription	HSMMtube	muscle
11	chr3:100530000-100594400	Weak transcription	HSMM	muscle
12	chr3:100530200-100537200	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr3:100530400-100547000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:100530600-100532400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:100530800-100533000	Weak transcription	Osteobl	bone
16	chr3:100530800-100555400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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