Variant report

Variant	rs11652843
Chromosome Location	chr17:16843250-16843251
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1004439	1.00[YRI][hapmap];0.85[AMR][1000 genomes]
rs11078356	0.95[CEU][hapmap];0.98[EUR][1000 genomes]
rs11650590	1.00[YRI][hapmap]
rs11651187	0.94[CEU][hapmap];0.98[EUR][1000 genomes]
rs11652811	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11654431	0.95[CEU][hapmap];0.98[EUR][1000 genomes]
rs11656106	0.86[CEU][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17793572	0.95[CEU][hapmap];0.99[EUR][1000 genomes]
rs4517836	0.85[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4985720	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs4985724	0.81[CEU][hapmap];0.85[AMR][1000 genomes]
rs4985725	0.81[CEU][hapmap];0.85[AMR][1000 genomes]
rs4985735	0.85[CEU][hapmap];0.85[AMR][1000 genomes]
rs4985783	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs55635506	0.85[AMR][1000 genomes]
rs56408153	0.85[AMR][1000 genomes]
rs58928848	0.99[EUR][1000 genomes]
rs6502540	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7209074	0.84[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7216399	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs7223652	0.85[AMR][1000 genomes]
rs8072293	0.85[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8081126	0.95[CEU][hapmap];0.98[EUR][1000 genomes]
rs9889948	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1058448	chr17:16389870-16926287	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	esv2753951	chr17:16660721-16848750	Enhancers Bivalent Enhancer Weak transcription Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	esv2755100	chr17:16660721-16848750	Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv833379	chr17:16683585-16859539	Enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv1055688	chr17:16800788-16868860	Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1058863	chr17:16812121-16943780	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv543227	chr17:16812121-16943780	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
8	nsv907726	chr17:16821204-16875636	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11652843	LOC96597	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:16837200-16844400	Weak transcription	Brain Cingulate Gyrus	brain
2	chr17:16840000-16843800	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr17:16840800-16847400	Strong transcription	GM12878-XiMat	blood
4	chr17:16841000-16846600	Strong transcription	Primary B cells from peripheral blood	blood
5	chr17:16841800-16844200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr17:16841800-16844400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr17:16842000-16843400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr17:16842000-16844800	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr17:16842400-16843400	Enhancers	Dnd41	blood
10	chr17:16842400-16846400	Weak transcription	Brain Anterior Caudate	brain
11	chr17:16842600-16849200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr17:16842800-16844200	Enhancers	H1 Cell Line	embryonic stem cell
13	chr17:16842800-16844200	Strong transcription	Spleen	Spleen
14	chr17:16843000-16843400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr17:16843000-16844400	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr17:16843000-16844800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr17:16843200-16844200	Enhancers	ES-WA7 Cell Line	embryonic stem cell

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