Variant report

Variant	rs1565574
Chromosome Location	chr3:151067730-151067731
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1048408	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10513392	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11714714	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11717955	0.85[CHB][hapmap];0.95[JPT][hapmap]
rs11719936	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12330831	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12488267	0.86[ASN][1000 genomes]
rs12494865	0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs1317465	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13317873	0.81[CEU][hapmap]
rs1352886	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.84[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs1472122	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.95[TSI][hapmap];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16863323	0.86[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.82[MKK][hapmap];0.95[YRI][hapmap];0.96[ASN][1000 genomes]
rs16863334	0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.80[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs16863336	0.95[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.82[MKK][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs1844924	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1882014	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.84[TSI][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1882015	1.00[CEU][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1882016	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.86[TSI][hapmap]
rs1882017	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1920396	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1980143	0.89[CEU][hapmap]
rs28371419	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28497341	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2904430	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3846072	0.81[CEU][hapmap]
rs4076581	0.83[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap]
rs4475010	0.80[ASN][1000 genomes]
rs4679772	0.89[CEU][hapmap]
rs4679783	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4680254	0.85[CEU][hapmap]
rs4680257	0.89[CEU][hapmap]
rs4680260	0.84[CEU][hapmap]
rs4680273	0.81[CEU][hapmap]
rs56105302	0.96[ASN][1000 genomes]
rs56367650	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58334126	0.91[ASN][1000 genomes]
rs62283021	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6440730	0.81[CEU][hapmap]
rs6765215	0.94[ASN][1000 genomes]
rs6768130	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6782313	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6782715	0.81[CEU][hapmap]
rs6807308	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6809692	0.86[CEU][hapmap]
rs7617677	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7621113	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7621183	0.83[ASN][1000 genomes]
rs7621211	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7623448	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7653603	0.92[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8180086	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9757688	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9810067	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9815520	0.89[CEU][hapmap]
rs9827619	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9828553	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9829753	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9835328	0.81[CEU][hapmap]
rs9870740	0.92[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs9875152	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9880339	0.81[CEU][hapmap]

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	nsv829757	chr3:151044880-151226442	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151063800-151099800	Weak transcription	Fetal Intestine Small	intestine
2	chr3:151064200-151069000	Enhancers	Primary hematopoietic stem cells	blood
3	chr3:151064200-151069800	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr3:151064400-151067800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:151064400-151089200	Weak transcription	NHLF	lung
6	chr3:151064600-151068400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr3:151064600-151075200	Weak transcription	Adipose Nuclei	Adipose
8	chr3:151064600-151112400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr3:151065200-151069400	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr3:151065400-151069000	Enhancers	Primary B cells from cord blood	blood
11	chr3:151065400-151079600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr3:151065600-151109400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr3:151065600-151115200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:151065800-151067800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr3:151065800-151082200	Weak transcription	Fetal Thymus	thymus
16	chr3:151066000-151069000	Weak transcription	Primary B cells from peripheral blood	blood
17	chr3:151066000-151074800	Weak transcription	Brain Anterior Caudate	brain
18	chr3:151066400-151075000	Weak transcription	Brain Hippocampus Middle	brain
19	chr3:151066600-151069000	Enhancers	Primary neutrophils fromperipheralblood	blood
20	chr3:151066800-151068000	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr3:151066800-151069000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr3:151066800-151069200	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr3:151066800-151074600	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr3:151067000-151067800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr3:151067000-151067800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr3:151067000-151068000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr3:151067000-151068200	Enhancers	H1 Cell Line	embryonic stem cell
28	chr3:151067200-151067800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
29	chr3:151067200-151068000	Enhancers	H9 Cell Line	embryonic stem cell
30	chr3:151067200-151069200	Enhancers	HUES48 Cell Line	embryonic stem cell
31	chr3:151067600-151068000	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr3:151067600-151068200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr3:151067600-151068600	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr3:151067600-151069200	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr3:151067600-151070600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood

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