Variant report

Variant	rs71322857
Chromosome Location	chr3:89216742-89216743
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: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1040015	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11914760	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11916891	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11928901	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12487141	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12490373	0.81[EUR][1000 genomes]
rs12490659	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12491480	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12493524	0.82[EUR][1000 genomes]
rs12493527	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12494615	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12495783	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12496609	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12496791	0.89[ASN][1000 genomes]
rs13058761	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13058886	0.99[EUR][1000 genomes]
rs13060198	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13070668	0.80[EUR][1000 genomes]
rs13071923	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13074291	0.82[EUR][1000 genomes]
rs13084503	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13089469	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095092	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097212	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097548	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13098003	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34493897	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34638812	0.81[EUR][1000 genomes]
rs34855223	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34893903	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34992749	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35053334	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35156943	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35445148	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35971332	0.89[ASN][1000 genomes]
rs56408441	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56938121	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59668913	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778523	0.81[EUR][1000 genomes]
rs71322851	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322854	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322855	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322856	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322858	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7430987	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7638207	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7642606	0.89[EUR][1000 genomes];0.92[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	chr3:89214000-89217400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:89214000-89218200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:89215000-89217400	Weak transcription	Brain Anterior Caudate	brain
6	chr3:89215200-89217200	Weak transcription	Brain Angular Gyrus	brain
7	chr3:89215200-89221000	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr3:89215200-89221000	Weak transcription	Brain Hippocampus Middle	brain
9	chr3:89215200-89221400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr3:89215400-89216800	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr3:89215400-89216800	Weak transcription	Brain Germinal Matrix	brain
12	chr3:89215600-89216800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr3:89215600-89221200	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr3:89215800-89217200	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr3:89216200-89216800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:89216200-89220400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr3:89216200-89220800	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr3:89216200-89221000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr3:89216200-89221000	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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