Variant report

Variant	rs56367650
Chromosome Location	chr3:150994171-150994172
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1048408	0.82[AFR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10513392	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11714714	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11717955	0.86[ASN][1000 genomes]
rs11719936	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12330831	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12488267	0.97[ASN][1000 genomes]
rs12494865	0.86[ASN][1000 genomes]
rs1317465	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1352886	0.84[ASN][1000 genomes]
rs1472122	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1565574	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16863323	0.86[ASN][1000 genomes]
rs16863334	0.86[ASN][1000 genomes]
rs16863336	0.84[ASN][1000 genomes]
rs1844924	0.82[AFR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1882014	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1882015	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1882017	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1920396	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28371419	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28497341	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2904430	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4076581	0.81[ASN][1000 genomes]
rs4475010	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4679783	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56105302	0.86[ASN][1000 genomes]
rs58334126	0.90[ASN][1000 genomes]
rs62283021	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6765215	0.86[ASN][1000 genomes]
rs6768130	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6782313	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6807308	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7617677	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7621113	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7621183	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7621211	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7623448	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7653603	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8180086	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9757688	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9810067	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9827619	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9828553	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9829753	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9870740	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9875152	0.85[EUR][1000 genomes];0.86[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:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150977800-151000000	Weak transcription	Placenta	Placenta
2	chr3:150983000-151011000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:150983800-151000600	Weak transcription	Brain Substantia Nigra	brain
4	chr3:150984000-150996000	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr3:150984200-150998800	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr3:150984400-151022400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr3:150984600-151003600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:150984600-151003600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr3:150988600-150995800	Weak transcription	Colon Smooth Muscle	Colon
10	chr3:150991200-150994200	Enhancers	GM12878-XiMat	blood
11	chr3:150991400-150994200	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr3:150991400-150998600	Enhancers	Primary T cells from cord blood	blood
13	chr3:150991600-150994200	Enhancers	Primary B cells from peripheral blood	blood
14	chr3:150991800-150995200	Enhancers	Fetal Thymus	thymus
15	chr3:150991800-150998800	Enhancers	Primary hematopoietic stem cells	blood
16	chr3:150992000-150994200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
17	chr3:150992000-150994200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr3:150992000-150997400	Enhancers	Primary T helper cells PMA-I stimulated	--
19	chr3:150992200-150995800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr3:150992200-150997000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr3:150992600-150996800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
22	chr3:150992600-150997000	Enhancers	Primary T helper cells fromperipheralblood	blood
23	chr3:150992800-150994600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr3:150992800-150996800	Enhancers	Primary T killer memory cells from peripheral blood	blood
25	chr3:150992800-150997000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
26	chr3:150993000-150995200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr3:150993000-150996800	Flanking Active TSS	Primary B cells from cord blood	blood
28	chr3:150993200-150995800	Weak transcription	Dnd41	blood
29	chr3:150993600-150994600	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr3:150993600-150995000	Active TSS	Rectal Smooth Muscle	rectum
31	chr3:150993600-150996800	Enhancers	Primary T helper naive cells from peripheral blood	blood
32	chr3:150993600-150996800	Active TSS	Adipose Nuclei	Adipose
33	chr3:150993800-150994200	Enhancers	Primary neutrophils fromperipheralblood	blood
34	chr3:150993800-150994600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr3:150993800-150995000	Enhancers	Primary T cells fromperipheralblood	blood
36	chr3:150993800-150995200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
37	chr3:150994000-150994200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr3:150994000-150994200	Flanking Active TSS	Duodenum Mucosa	Duodenum
39	chr3:150994000-150994400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
40	chr3:150994000-150996200	Active TSS	Rectal Mucosa Donor 31	rectum
41	chr3:150994000-150996400	Active TSS	Duodenum Smooth Muscle	Duodenum

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