Variant report

Variant	rs17029269
Chromosome Location	chr4:100575398-100575399
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 77 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1027223	0.83[ASN][1000 genomes]
rs1032355	0.90[ASN][1000 genomes]
rs10516442	0.85[ASN][1000 genomes]
rs10516455	0.83[ASN][1000 genomes]
rs1115721	0.83[ASN][1000 genomes]
rs11936303	0.81[ASN][1000 genomes]
rs12152646	0.90[ASN][1000 genomes]
rs12498565	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12507390	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12509976	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12510369	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12639747	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12648614	0.85[ASN][1000 genomes]
rs13103880	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13110062	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13112253	0.87[CHD][hapmap]
rs13114983	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13118288	1.00[CEU][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13123629	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13124255	1.00[CEU][hapmap];0.83[CHB][hapmap];0.81[JPT][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13130068	0.81[ASN][1000 genomes]
rs13131135	1.00[CEU][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13131565	0.85[ASN][1000 genomes]
rs13131644	0.85[ASN][1000 genomes]
rs13139650	0.87[ASN][1000 genomes]
rs13152833	0.85[ASN][1000 genomes]
rs1352775	0.83[CHD][hapmap]
rs1388295	0.81[ASN][1000 genomes]
rs1491234	0.92[JPT][hapmap];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1491240	1.00[CEU][hapmap];0.83[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1491247	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1586756	0.83[ASN][1000 genomes]
rs1586757	0.83[ASN][1000 genomes]
rs16996623	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17029112	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17029137	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17029575	1.00[CEU][hapmap]
rs1873518	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1948353	0.81[ASN][1000 genomes]
rs1979659	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2220636	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2306986	1.00[CEU][hapmap];0.83[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2866167	0.80[ASN][1000 genomes]
rs34398286	0.85[ASN][1000 genomes]
rs34446513	0.82[ASN][1000 genomes]
rs34500159	0.85[ASN][1000 genomes]
rs35043772	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35107102	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35112301	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35215295	0.83[ASN][1000 genomes]
rs35502934	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35779395	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs36044991	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs36098323	0.83[ASN][1000 genomes]
rs3792683	1.00[CEU][hapmap];0.83[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3805336	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4552468	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4699758	1.00[CEU][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58844793	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6532822	0.87[ASN][1000 genomes]
rs66931934	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6831328	0.81[ASN][1000 genomes]
rs6832692	0.81[ASN][1000 genomes]
rs71614607	0.83[ASN][1000 genomes]
rs73832826	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73832830	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7670607	0.83[CHB][hapmap];0.90[CHD][hapmap]
rs7675468	1.00[CEU][hapmap];0.83[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7677594	0.80[ASN][1000 genomes]
rs7678142	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7678889	0.82[ASN][1000 genomes]
rs7688705	0.84[ASN][1000 genomes]
rs884276	1.00[CEU][hapmap];0.83[CHB][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs951941	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs958868	1.00[CEU][hapmap];0.83[CHB][hapmap];0.94[JPT][hapmap];0.83[TSI][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs982424	0.87[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	nsv933074	chr4:100460951-100630600	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17029269	RG9MTD2	cis	lymphoblastoid	seeQTL

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:100566600-100575800	Weak transcription	Fetal Heart	heart
2	chr4:100567800-100579200	Weak transcription	Stomach Smooth Muscle	stomach
3	chr4:100570200-100575600	Weak transcription	Left Ventricle	heart
4	chr4:100570200-100576200	Weak transcription	Fetal Lung	lung
5	chr4:100570800-100575400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr4:100571000-100576000	Active TSS	Psoas Muscle	Psoas
7	chr4:100571000-100576200	Weak transcription	Brain Anterior Caudate	brain
8	chr4:100572000-100575800	Flanking Active TSS	Fetal Muscle Trunk	muscle
9	chr4:100573400-100575400	Active TSS	Skeletal Muscle Female	skeletal muscle
10	chr4:100574200-100576000	Enhancers	Ovary	ovary
11	chr4:100574400-100575800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr4:100574600-100575400	Active TSS	Right Ventricle	heart
13	chr4:100574600-100575600	Flanking Active TSS	Fetal Muscle Leg	muscle
14	chr4:100574800-100576200	Active TSS	Skeletal Muscle Male	skeletal muscle
15	chr4:100575000-100575400	Flanking Bivalent TSS/Enh	Muscle Satellite Cultured Cells	--
16	chr4:100575000-100576000	Flanking Active TSS	HSMMtube	muscle
17	chr4:100575000-100577200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr4:100575200-100575800	Enhancers	Right Atrium	heart
19	chr4:100575200-100576000	Flanking Active TSS	HSMM	muscle
20	chr4:100575200-100577200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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