Variant report

Variant	rs13095887
Chromosome Location	chr3:23279441-23279442
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs1027380	0.86[ASN][1000 genomes]
rs10510537	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11711630	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11715107	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13063986	0.86[JPT][hapmap]
rs13083654	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13084327	0.84[JPT][hapmap]
rs13087234	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13087416	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13090303	0.86[JPT][hapmap]
rs13095736	0.86[JPT][hapmap]
rs1390083	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1495133	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1495134	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1552931	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17012823	0.86[JPT][hapmap]
rs17012834	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17012844	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17012852	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17012861	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17012927	1.00[JPT][hapmap]
rs17012943	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17012959	1.00[JPT][hapmap]
rs17012969	1.00[JPT][hapmap]
rs17012988	1.00[JPT][hapmap]
rs17012998	1.00[JPT][hapmap]
rs17013003	1.00[JPT][hapmap]
rs17013026	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17013029	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17013035	0.86[JPT][hapmap]
rs17013104	0.86[JPT][hapmap]
rs17013116	0.86[JPT][hapmap]
rs17013125	0.86[JPT][hapmap]
rs17013128	0.86[JPT][hapmap]
rs17013152	0.84[JPT][hapmap]
rs17013216	0.86[JPT][hapmap]
rs17013219	0.84[JPT][hapmap]
rs17013223	0.84[JPT][hapmap]
rs17342342	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17345745	0.84[JPT][hapmap]
rs2014132	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2088129	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2132145	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2132147	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2132148	0.95[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs2132149	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2291720	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs36073188	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4293660	0.80[ASN][1000 genomes]
rs4334589	0.96[ASN][1000 genomes]
rs4858065	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4858066	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4858488	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4858498	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6769959	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6790185	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6799861	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6806387	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73149661	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7618910	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7629327	0.85[ASN][1000 genomes]
rs7635882	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7648425	0.87[ASN][1000 genomes]
rs903519	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs923996	0.92[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9826103	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9836135	0.80[AFR][1000 genomes]
rs9840015	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9844558	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9848331	0.85[ASN][1000 genomes]
rs9873329	0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834636	chr3:23138653-23301443	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23265400-23282000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:23272600-23283000	Weak transcription	HMEC	breast
3	chr3:23274400-23280800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr3:23274600-23279800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr3:23274600-23281400	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr3:23274600-23283000	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr3:23274800-23280200	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr3:23274800-23298200	Weak transcription	Aorta	Aorta
9	chr3:23275000-23280800	Weak transcription	Brain Anterior Caudate	brain
10	chr3:23276400-23279600	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr3:23276800-23281000	Weak transcription	Fetal Heart	heart
12	chr3:23277000-23279600	Weak transcription	Brain Hippocampus Middle	brain
13	chr3:23277400-23279800	Weak transcription	Psoas Muscle	Psoas
14	chr3:23277400-23280800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr3:23278000-23280200	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr3:23278400-23279800	Weak transcription	Brain Substantia Nigra	brain
17	chr3:23278400-23280000	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr3:23278400-23280000	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr3:23278400-23280800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr3:23278400-23280800	Weak transcription	Brain Cingulate Gyrus	brain
21	chr3:23278600-23279800	Weak transcription	Primary B cells from peripheral blood	blood
22	chr3:23278600-23279800	Weak transcription	Brain Angular Gyrus	brain
23	chr3:23278600-23280200	Enhancers	iPS-18 Cell Line	embryonic stem cell
24	chr3:23278600-23280200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr3:23278600-23281200	Weak transcription	Adipose Nuclei	Adipose
26	chr3:23278600-23289600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr3:23278800-23283000	Weak transcription	Left Ventricle	heart
28	chr3:23279200-23279600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr3:23279200-23279600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr3:23279400-23282800	Enhancers	Primary neutrophils fromperipheralblood	blood

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