Variant report

Variant	rs9310110
Chromosome Location	chr3:89215686-89215687
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:89207136..89210104-chr3:89214868..89216855,2	MCF-7	breast:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs13316356	0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs13323078	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1398531	0.89[ASN][1000 genomes]
rs1567731	0.84[ASN][1000 genomes]
rs17026816	0.83[ASN][1000 genomes]
rs17738248	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17800551	0.88[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2063590	0.84[ASN][1000 genomes]
rs2137487	0.84[ASN][1000 genomes]
rs2137488	0.84[ASN][1000 genomes]
rs28620812	0.81[ASN][1000 genomes]
rs28834186	0.85[ASN][1000 genomes]
rs4857497	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4857502	0.88[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs57468276	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62274619	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62274634	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62274635	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62274654	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62274656	0.89[AFR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62274657	0.89[AFR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62274981	0.82[ASN][1000 genomes]
rs62274982	0.82[ASN][1000 genomes]
rs62274984	0.82[ASN][1000 genomes]
rs62274986	0.84[ASN][1000 genomes]
rs62278161	0.89[ASN][1000 genomes]
rs62278163	0.89[ASN][1000 genomes]
rs62278164	0.85[ASN][1000 genomes]
rs62278166	0.85[ASN][1000 genomes]
rs62278168	0.85[ASN][1000 genomes]
rs62278170	0.85[ASN][1000 genomes]
rs62278171	0.85[ASN][1000 genomes]
rs62278172	0.85[ASN][1000 genomes]
rs6773815	0.85[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6776281	0.89[ASN][1000 genomes]
rs6786204	0.85[ASN][1000 genomes]
rs6786328	0.85[ASN][1000 genomes]
rs6794975	0.89[ASN][1000 genomes]
rs6796339	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs73146387	0.89[ASN][1000 genomes]
rs7373232	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7374904	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7631682	1.00[JPT][hapmap]
rs9310112	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9809894	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9821666	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs9829401	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9832305	1.00[JPT][hapmap]
rs9836340	1.00[JPT][hapmap]
rs9839323	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9842599	1.00[JPT][hapmap]
rs9847087	0.85[ASN][1000 genomes]
rs9848971	0.89[ASN][1000 genomes]
rs9851954	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9852380	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs9852594	0.86[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9852722	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs9852981	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9862195	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9863058	0.88[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9863107	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs9863971	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9864261	0.81[EUR][1000 genomes]
rs9866618	0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.81[ASN][1000 genomes]
rs9868782	1.00[JPT][hapmap]
rs9875278	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs9883541	0.85[ASN][1000 genomes]
rs993186	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs993187	0.88[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834760	chr3:89085529-89299398	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1005603	chr3:89174152-89223459	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv997874	chr3:89188275-89279573	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1008916	chr3:89206065-89241915	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89211600-89217400	Enhancers	iPS-18 Cell Line	embryonic stem cell
2	chr3:89213400-89218400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr3:89213600-89216200	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr3:89213800-89216200	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr3:89214000-89215800	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr3:89214000-89217400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr3:89214000-89218200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:89215000-89217400	Weak transcription	Brain Anterior Caudate	brain
9	chr3:89215200-89217200	Weak transcription	Brain Angular Gyrus	brain
10	chr3:89215200-89221000	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr3:89215200-89221000	Weak transcription	Brain Hippocampus Middle	brain
12	chr3:89215200-89221400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr3:89215400-89216200	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr3:89215400-89216200	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr3:89215400-89216200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:89215400-89216800	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr3:89215400-89216800	Weak transcription	Brain Germinal Matrix	brain
18	chr3:89215600-89216800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr3:89215600-89221200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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