Variant report

Variant	rs9809828
Chromosome Location	chr3:34118769-34118770
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10049124	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11715451	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11715502	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11717932	1.00[CHB][hapmap]
rs11921797	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4374481	1.00[ASN][1000 genomes]
rs62250185	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6798950	1.00[ASN][1000 genomes]
rs73050728	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73055519	0.93[EUR][1000 genomes]
rs7628777	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9834233	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838608	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9863160	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9865960	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9868707	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9881551	0.93[EUR][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	nsv522881	chr3:33736126-34241686	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	esv3525372	chr3:34118598-34121396	Weak transcription Enhancers Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:34111000-34119000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:34114400-34119200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr3:34114800-34119200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:34115000-34119000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr3:34115400-34119200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr3:34115600-34119000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr3:34115800-34119200	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr3:34115800-34120200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr3:34115800-34120400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr3:34116000-34120200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr3:34116400-34118800	Weak transcription	GM12878-XiMat	blood
12	chr3:34117000-34119000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr3:34118600-34119200	Enhancers	Cortex derived primary cultured neurospheres	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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