Variant report

Variant	rs58139829
Chromosome Location	chr3:150971762-150971763
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10513391	0.94[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs10935831	0.94[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs10935832	0.87[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs10935833	0.94[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs12636396	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12639390	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16863287	0.94[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs1882013	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28527299	0.81[ASN][1000 genomes]
rs34997694	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680256	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4680262	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4680263	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62282985	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282988	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7618206	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7620767	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[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:22 , 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	chr3:150967200-150974200	Weak transcription	Fetal Lung	lung
11	chr3:150968800-150972000	Weak transcription	Primary B cells from cord blood	blood
12	chr3:150969800-150977000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:150970000-150972200	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr3:150970600-150972600	Enhancers	Colon Smooth Muscle	Colon
15	chr3:150970600-150974200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr3:150971000-150975200	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr3:150971000-150975400	Enhancers	Fetal Stomach	stomach
18	chr3:150971200-150972200	Weak transcription	Psoas Muscle	Psoas
19	chr3:150971200-150983800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr3:150971400-150971800	Weak transcription	Rectal Smooth Muscle	rectum
21	chr3:150971400-150972600	Enhancers	Stomach Smooth Muscle	stomach
22	chr3:150971400-150974000	Weak transcription	Stomach Mucosa	stomach

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