Variant report

Variant	rs6434311
Chromosome Location	chr2:189889886-189889887
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10178611	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10178886	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10181597	1.00[ASW][hapmap];0.94[CEU][hapmap];0.90[CHB][hapmap];0.84[CHD][hapmap];0.92[GIH][hapmap];0.81[JPT][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];0.90[MKK][hapmap];0.90[TSI][hapmap];0.93[YRI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10194682	0.94[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.87[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.93[TSI][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11686253	0.94[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11690723	0.94[CEU][hapmap];0.90[CHB][hapmap];0.84[JPT][hapmap];0.89[YRI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12622083	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12693526	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12693527	0.94[CEU][hapmap];0.90[CHB][hapmap];0.80[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12693528	0.94[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.93[YRI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12989558	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13008197	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13391332	0.94[CEU][hapmap];0.81[JPT][hapmap];0.93[YRI][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13401377	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28486035	0.94[AFR][1000 genomes]
rs28758810	0.85[AFR][1000 genomes]
rs4667259	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6414121	0.94[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6434310	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6434315	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6434316	1.00[ASW][hapmap];0.94[CEU][hapmap];0.90[CHB][hapmap];0.82[CHD][hapmap];0.92[GIH][hapmap];0.94[LWK][hapmap];0.95[MEX][hapmap];0.90[MKK][hapmap];0.86[TSI][hapmap];0.93[YRI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6434317	1.00[ASW][hapmap];0.94[CEU][hapmap];0.90[CHB][hapmap];0.84[CHD][hapmap];0.92[GIH][hapmap];0.81[JPT][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];0.90[MKK][hapmap];0.90[TSI][hapmap];0.93[YRI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6434318	1.00[ASW][hapmap];0.94[CEU][hapmap];0.90[CHB][hapmap];0.84[CHD][hapmap];0.92[GIH][hapmap];0.81[JPT][hapmap];0.94[LWK][hapmap];0.95[MEX][hapmap];0.90[MKK][hapmap];0.90[TSI][hapmap];0.93[YRI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6434321	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6434323	0.89[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap];0.93[YRI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6738371	1.00[ASW][hapmap];0.94[CEU][hapmap];0.90[CHB][hapmap];0.87[CHD][hapmap];0.92[GIH][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];0.90[MKK][hapmap];0.90[TSI][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6760780	0.84[AFR][1000 genomes]
rs7420511	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7421040	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.98[LWK][hapmap];0.91[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7421525	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7423808	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7423973	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7424137	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7424790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7426169	0.94[CEU][hapmap];0.90[CHB][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7557945	0.94[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.93[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7562299	0.89[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7568732	0.94[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.93[YRI][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7591905	0.98[AFR][1000 genomes]
rs7602447	1.00[ASW][hapmap];0.92[GIH][hapmap];0.95[LWK][hapmap];0.90[MEX][hapmap];0.89[MKK][hapmap];0.84[TSI][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7606293	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv875610	chr2:189796272-189904674	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6434311	WDR75	cis	cerebellum	SCAN

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:189876200-189898600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr2:189877400-189897400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr2:189880200-189895200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr2:189881200-189895000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr2:189885200-189890200	Weak transcription	HSMM	muscle
6	chr2:189885200-189895600	Weak transcription	HSMMtube	muscle
7	chr2:189885200-189898800	Weak transcription	Colon Smooth Muscle	Colon
8	chr2:189885800-189895600	Weak transcription	Fetal Muscle Trunk	muscle
9	chr2:189886600-189895800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr2:189887200-189891000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr2:189887200-189895800	Weak transcription	Fetal Lung	lung
12	chr2:189887400-189891200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr2:189887400-189895400	Weak transcription	NH-A	brain
14	chr2:189887600-189895000	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr2:189887600-189895200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr2:189887600-189897400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr2:189888000-189890000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr2:189888000-189902600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr2:189888000-189917400	Weak transcription	Ovary	ovary
20	chr2:189889200-189890400	Enhancers	Adipose Nuclei	Adipose
21	chr2:189889200-189891000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr2:189889400-189890400	Enhancers	Aorta	Aorta
23	chr2:189889400-189890400	Enhancers	Fetal Muscle Leg	muscle
24	chr2:189889400-189890400	Enhancers	Fetal Stomach	stomach
25	chr2:189889400-189890400	Genic enhancers	NHLF	lung
26	chr2:189889400-189890600	Enhancers	NHDF-Ad	bronchial
27	chr2:189889600-189890600	Enhancers	Osteobl	bone
28	chr2:189889800-189890400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr2:189889800-189931000	Weak transcription	Esophagus	oesophagus

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