Variant report

Variant	rs12258909
Chromosome Location	chr10:98095297-98095298
allele	C/T
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]
rs1003025	0.89[EUR][1000 genomes]
rs10736101	0.95[EUR][1000 genomes]
rs10736102	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10736103	1.00[CEU][hapmap];1.00[GIH][hapmap];0.80[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11188715	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs12098589	0.84[EUR][1000 genomes]
rs12258610	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.95[EUR][1000 genomes]
rs12266884	1.00[CEU][hapmap]
rs12355449	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs1923699	1.00[MEX][hapmap]
rs1923700	1.00[MEX][hapmap]
rs4919008	1.00[MEX][hapmap];0.90[TSI][hapmap];0.84[EUR][1000 genomes]
rs4919009	1.00[MEX][hapmap];0.90[TSI][hapmap];0.84[EUR][1000 genomes]
rs59794161	0.95[EUR][1000 genomes]
rs74153642	0.84[EUR][1000 genomes]
rs74153644	0.84[EUR][1000 genomes]
rs74153645	0.84[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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv831950	chr10:98080972-98245434	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98092200-98096200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr10:98092600-98097800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr10:98094400-98099400	Strong transcription	Thymus	Thymus
4	chr10:98095000-98097400	Strong transcription	Fetal Thymus	thymus
5	chr10:98095200-98097200	Weak transcription	Brain Substantia Nigra	brain
6	chr10:98095200-98097400	Weak transcription	Brain Angular Gyrus	brain
7	chr10:98095200-98097400	Weak transcription	Brain Hippocampus Middle	brain
8	chr10:98095200-98098000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr10:98095200-98098400	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr10:98095200-98098400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr10:98095200-98098400	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr10:98095200-98098600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr10:98095200-98098600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr10:98095200-98098600	Weak transcription	Brain Anterior Caudate	brain
15	chr10:98095200-98098800	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr10:98095200-98099400	Strong transcription	Dnd41	blood
17	chr10:98095200-98099800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr10:98095200-98101200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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