Variant report

Variant	rs4743325
Chromosome Location	chr9:101849727-101849728
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1051105	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10988700	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11788920	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12683114	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12685226	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13296447	0.95[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1413298	0.89[CHD][hapmap]
rs1537504	0.95[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16918198	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34863444	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35312758	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4742756	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.81[LWK][hapmap];0.84[MKK][hapmap];0.97[TSI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4742758	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4742759	1.00[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4742760	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4742761	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4743321	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4743322	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4743323	1.00[CEU][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4743324	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57992539	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7022000	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7025264	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7031364	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7046702	0.81[CEU][hapmap];0.81[CHB][hapmap];0.95[MEX][hapmap];0.81[TSI][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71494009	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7874183	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs885154	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs885155	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs914991	1.00[CEU][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs914992	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.95[EUR][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	nsv893618	chr9:101800106-101886071	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv893619	chr9:101835165-101936231	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4743325	TSTD2	cis	parietal	SCAN

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101840000-101853800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr9:101846200-101858800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:101847200-101850000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
4	chr9:101847600-101850000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr9:101847800-101849800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr9:101848200-101849800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr9:101848200-101849800	Enhancers	Brain Cingulate Gyrus	brain
8	chr9:101848200-101850200	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr9:101848600-101853400	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr9:101848800-101849800	Enhancers	Osteobl	bone
11	chr9:101848800-101850600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr9:101848800-101852800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr9:101848800-101853800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr9:101849000-101850000	Enhancers	Adipose Nuclei	Adipose
15	chr9:101849000-101850000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr9:101849000-101851600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr9:101849200-101849800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr9:101849200-101849800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr9:101849200-101852200	Weak transcription	NHDF-Ad	bronchial
20	chr9:101849200-101852400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr9:101849400-101849800	Enhancers	Placenta	Placenta
22	chr9:101849400-101849800	Enhancers	Skeletal Muscle Female	skeletal muscle
23	chr9:101849400-101850000	Enhancers	Lung	lung
24	chr9:101849400-101850000	Enhancers	Monocytes-CD14+_RO01746	blood
25	chr9:101849400-101850400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr9:101849400-101850400	Enhancers	NHEK	skin
27	chr9:101849400-101852600	Weak transcription	HSMM	muscle
28	chr9:101849600-101849800	Enhancers	Primary T cells fromperipheralblood	blood
29	chr9:101849600-101849800	Enhancers	Left Ventricle	heart
30	chr9:101849600-101850400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr9:101849600-101850400	Enhancers	HMEC	breast

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