Variant report

Variant	rs10828903
Chromosome Location	chr10:26190522-26190523
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10128266	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10128512	1.00[LWK][hapmap];1.00[MKK][hapmap];0.91[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11014826	1.00[AMR][1000 genomes]
rs11014835	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11014836	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11014838	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11014843	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11014844	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11014849	0.83[AFR][1000 genomes]
rs11014858	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11014926	0.87[YRI][hapmap]
rs12249093	0.91[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12251038	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12252281	0.82[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12254587	0.82[YRI][hapmap]
rs12255497	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12258905	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12260850	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12267363	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58289791	1.00[AMR][1000 genomes]
rs7073840	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7086945	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7086963	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7087106	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7089023	0.80[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7093036	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7099128	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7099929	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73610364	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73610365	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7904403	1.00[AMR][1000 genomes]
rs7905635	0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs7911886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7924004	0.94[AFR][1000 genomes];1.00[AMR][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	nsv894974	chr10:26028530-26322783	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1051756	chr10:26092320-26277478	Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10828903	RNF212	trans	lymphoblastoid	seeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:26188600-26197000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr10:26189000-26193200	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr10:26189600-26193800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr10:26189800-26192000	Enhancers	GM12878-XiMat	blood
5	chr10:26190000-26191000	Flanking Active TSS	Primary B cells from cord blood	blood
6	chr10:26190000-26191200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr10:26190400-26190600	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr10:26190400-26190600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr10:26190400-26190600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr10:26190400-26190600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr10:26190400-26190800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr10:26190400-26190800	Flanking Active TSS	Primary B cells from peripheral blood	blood
13	chr10:26190400-26190800	Enhancers	Fetal Brain Male	brain

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