Variant report

Variant	rs17007241
Chromosome Location	chr4:124660644-124660645
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10002832	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10003021	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10028082	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10031024	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10031632	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10031894	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10518306	0.83[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs11098722	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11729742	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1425403	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1425404	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1425406	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1425407	0.87[EUR][1000 genomes]
rs1433219	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17007176	1.00[JPT][hapmap]
rs17007305	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1895754	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2194866	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28361300	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28361543	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28376823	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28470742	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28493674	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28595508	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28670181	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28699481	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28805878	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4833290	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4833291	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4833292	0.92[EUR][1000 genomes]
rs4833935	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4833939	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4833942	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4833945	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4833946	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4833947	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4833948	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4833949	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4833952	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57927362	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57978274	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59468019	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6821590	0.89[EUR][1000 genomes]
rs6827679	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6828406	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6847358	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72929724	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72929781	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7659116	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7668462	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7677587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7691744	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7692299	0.92[EUR][1000 genomes]
rs7699549	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9631736	0.85[EUR][1000 genomes]
rs9992459	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34581	chr4:124271321-125247395	Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv830047	chr4:124504051-124699142	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17007241	TRPC3	cis	parietal	SCAN
rs17007241	QRFPR	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:124651000-124666000	Weak transcription	Psoas Muscle	Psoas
2	chr4:124658400-124665000	Weak transcription	Fetal Intestine Small	intestine
3	chr4:124658600-124661600	Weak transcription	Adipose Nuclei	Adipose
4	chr4:124658600-124663200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr4:124658800-124664800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr4:124660600-124665600	Weak transcription	Primary hematopoietic stem cells	blood

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