Variant report

Variant	rs11142777
Chromosome Location	chr9:73900642-73900643
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:73900156..73900815-chr9:74383864..74384765,2	MCF-7	breast:
2	chr9:73898945..73901446-chr9:74374124..74376228,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10868991	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10868997	0.85[EUR][1000 genomes]
rs11142711	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11142717	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11142719	1.00[ASN][1000 genomes]
rs11142736	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11142750	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11142753	0.86[EUR][1000 genomes]
rs11142757	1.00[ASN][1000 genomes]
rs11142763	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11142773	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11142774	0.83[EUR][1000 genomes]
rs11142778	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11142779	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11142780	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11142781	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12005021	0.81[EUR][1000 genomes]
rs12378604	0.85[EUR][1000 genomes]
rs12379392	0.85[EUR][1000 genomes]
rs12380581	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1504388	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1504389	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1504390	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1504391	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1504392	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1504404	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1532801	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1532802	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1532803	0.80[EUR][1000 genomes]
rs1532804	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17056425	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17056483	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17616798	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2174308	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2309916	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2309917	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2309918	0.82[AFR][1000 genomes]
rs2871376	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35533028	1.00[ASN][1000 genomes]
rs4079469	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4370599	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4370600	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7021834	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7027219	0.85[EUR][1000 genomes]
rs7039341	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7040929	0.85[EUR][1000 genomes]
rs7043726	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73467746	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73469317	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73469327	0.86[EUR][1000 genomes]
rs73647995	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs763359	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7848661	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7854181	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7854330	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7870153	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9785216	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9785312	0.86[EUR][1000 genomes]
rs985654	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035505	chr9:73709852-73934353	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv893442	chr9:73778502-74115344	Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv893443	chr9:73859086-74008905	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv916062	chr9:73861614-74246247	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv614605	chr9:73887092-73915883	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:73900000-73901400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:73900200-73900800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr9:73900200-73900800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr9:73900200-73900800	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr9:73900200-73900800	Enhancers	Aorta	Aorta
6	chr9:73900200-73901400	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr9:73900200-73901600	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr9:73900400-73900800	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr9:73900400-73900800	Enhancers	H1 Cell Line	embryonic stem cell
10	chr9:73900400-73900800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr9:73900400-73900800	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr9:73900400-73900800	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr9:73900400-73900800	Enhancers	Brain Anterior Caudate	brain
14	chr9:73900400-73900800	Enhancers	Left Ventricle	heart
15	chr9:73900400-73900800	Enhancers	HepG2	liver
16	chr9:73900400-73901400	Enhancers	iPS-15b Cell Line	embryonic stem cell
17	chr9:73900600-73900800	Enhancers	Liver	Liver
18	chr9:73900600-73900800	Flanking Bivalent TSS/Enh	Brain Hippocampus Middle	brain
19	chr9:73900600-73900800	Enhancers	Brain Inferior Temporal Lobe	brain
20	chr9:73900600-73900800	Enhancers	Brain Substantia Nigra	brain
21	chr9:73900600-73901600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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