Variant report

Variant	rs10828820
Chromosome Location	chr10:25840422-25840423
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10764559	0.87[CEU][hapmap];0.96[CHB][hapmap];0.88[JPT][hapmap];0.90[ASN][1000 genomes]
rs10764561	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10764562	0.85[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10828818	0.80[JPT][hapmap]
rs10828819	1.00[CEU][hapmap];0.95[CHB][hapmap];0.83[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10828824	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10828826	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10828827	0.86[CHB][hapmap];0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11014612	0.87[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs11014613	0.88[ASN][1000 genomes]
rs12245398	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1335199	0.83[JPT][hapmap]
rs1335200	0.83[JPT][hapmap]
rs1414040	0.87[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1414044	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1414045	0.87[CEU][hapmap];0.96[CHB][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs1414046	0.88[ASN][1000 genomes]
rs4747530	0.83[JPT][hapmap]
rs6482496	0.86[ASN][1000 genomes]
rs7079198	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7088106	0.87[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs7100209	0.87[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7100629	0.83[JPT][hapmap]
rs7101141	0.87[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.95[ASN][1000 genomes]
rs7358105	1.00[CEU][hapmap];0.96[CHB][hapmap];0.92[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7899012	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7911256	0.87[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7915074	0.95[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs7917704	0.85[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7922110	0.91[CHB][hapmap];0.85[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3349863	chr10:25614571-25946379	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25836600-25841200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr10:25836800-25844800	Weak transcription	NH-A	brain
3	chr10:25838200-25840800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr10:25839200-25840800	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr10:25839200-25843600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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