Variant report

Variant	rs3824428
Chromosome Location	chr9:95599848-95599849
allele	A/C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10115872	0.92[CHB][hapmap];0.88[JPT][hapmap];0.95[ASN][1000 genomes]
rs10123843	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10123870	0.90[ASN][1000 genomes]
rs10156497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1022833	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1047868	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs10739932	0.93[ASN][1000 genomes]
rs10739933	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10739934	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10761172	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10761173	0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10761175	0.97[ASN][1000 genomes]
rs10821020	0.96[YRI][hapmap];0.90[AFR][1000 genomes]
rs10821021	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821022	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821023	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs10821028	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821030	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10821031	0.95[ASN][1000 genomes]
rs10821032	0.93[ASN][1000 genomes]
rs10821035	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10821040	0.82[ASN][1000 genomes]
rs10992484	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs10992489	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10992529	0.82[ASN][1000 genomes]
rs12003440	0.81[CHB][hapmap];0.84[JPT][hapmap]
rs12336022	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12337654	0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12338961	0.95[ASN][1000 genomes]
rs12346689	0.90[ASN][1000 genomes]
rs12379300	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13288901	0.89[ASN][1000 genomes]
rs13293147	0.88[JPT][hapmap]
rs13294147	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs1810685	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs1810686	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs1810687	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs1972214	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs1998483	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs2009444	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs2296060	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs28700150	0.97[ASN][1000 genomes]
rs36194652	0.82[ASN][1000 genomes]
rs4078292	0.86[JPT][hapmap]
rs4133033	0.82[ASN][1000 genomes]
rs4535796	0.85[ASN][1000 genomes]
rs4538949	0.82[ASN][1000 genomes]
rs4626670	0.82[ASN][1000 genomes]
rs4744148	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs4744150	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4744151	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6479434	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7032277	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7035881	0.86[JPT][hapmap]
rs7039812	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7040645	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7043469	0.88[JPT][hapmap]
rs7045305	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7049211	0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs7847713	0.95[ASN][1000 genomes]
rs7847998	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7850036	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs7865255	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs7866339	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs7868123	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs7869480	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7869498	0.90[YRI][hapmap];0.91[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs7872848	0.82[ASN][1000 genomes]
rs7872987	0.82[ASN][1000 genomes]
rs7873021	0.95[ASN][1000 genomes]
rs7873259	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs7873819	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs7874026	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv893574	chr9:95580376-95688099	Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv525363	chr9:95598200-95605067	ZNF genes & repeats Weak transcription Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95596800-95600600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr9:95596800-95601800	Weak transcription	Brain Angular Gyrus	brain
3	chr9:95598000-95616800	ZNF genes & repeats	Liver	Liver
4	chr9:95598600-95603200	Weak transcription	Brain Cingulate Gyrus	brain
5	chr9:95599000-95600000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr9:95599200-95600000	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
7	chr9:95599200-95600000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr9:95599200-95600000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:95599200-95600200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr9:95599600-95600000	ZNF genes & repeats	Placenta	Placenta
11	chr9:95599800-95600800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr9:95599800-95608400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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