Variant report

Variant	rs9815520
Chromosome Location	chr3:150977411-150977412
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10212582	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1048408	0.89[CEU][hapmap]
rs10513392	0.90[CEU][hapmap]
rs11711104	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11714714	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11719936	0.90[CEU][hapmap]
rs13317873	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1472122	0.89[CEU][hapmap]
rs1565574	0.89[CEU][hapmap]
rs1882014	0.89[CEU][hapmap]
rs1882015	0.90[CEU][hapmap]
rs1882016	0.89[CEU][hapmap]
rs1920395	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs1980143	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2904430	0.90[CEU][hapmap]
rs3846072	0.89[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4679772	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4679783	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4680254	0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4680257	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4680260	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4680273	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6440730	0.89[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6782715	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6807308	0.96[CEU][hapmap]
rs6809692	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73021201	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7617677	0.96[CEU][hapmap];0.80[AMR][1000 genomes]
rs7621113	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7621211	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7623448	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7653603	0.96[CEU][hapmap]
rs8180086	0.89[CEU][hapmap]
rs9757688	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9810067	0.90[CEU][hapmap]
rs9827619	0.90[CEU][hapmap]
rs9828553	0.89[CEU][hapmap]
rs9829753	0.82[AMR][1000 genomes]
rs9835328	0.89[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9853297	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9870740	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9875152	0.90[CEU][hapmap]
rs9880339	0.89[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2754555	chr3:150968302-151054302	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150946200-150979400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:150946800-150983600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr3:150952800-150978400	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr3:150953800-150983800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:150959600-150977800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:150959600-150978200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr3:150961200-150983600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:150965000-150980800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr3:150967000-150982600	Weak transcription	Gastric	stomach
10	chr3:150971200-150983800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr3:150971800-150978000	Enhancers	Rectal Smooth Muscle	rectum
12	chr3:150973600-150978400	Enhancers	Colon Smooth Muscle	Colon
13	chr3:150973800-150983800	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr3:150974000-150978400	Enhancers	Stomach Mucosa	stomach
15	chr3:150974000-150983600	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr3:150974200-150978600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr3:150974400-150982600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr3:150974400-150987600	Weak transcription	Aorta	Aorta
19	chr3:150974800-150983800	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr3:150975800-150980800	Weak transcription	Fetal Lung	lung
21	chr3:150976400-150978200	Weak transcription	Primary B cells from cord blood	blood
22	chr3:150976800-150978000	Enhancers	Fetal Stomach	stomach
23	chr3:150977000-150977600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr3:150977000-150983600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr3:150977200-150978200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr3:150977400-150977600	Active TSS	Stomach Smooth Muscle	stomach
27	chr3:150977400-150982400	Weak transcription	Duodenum Smooth Muscle	Duodenum

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