Variant report

Variant	rs9829607
Chromosome Location	chr3:60289140-60289141
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:60285656..60288735-chr3:60288891..60292381,4	K562	blood:
2	chr3:60282564..60285388-chr3:60286384..60290912,4	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10154846	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10428177	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10866033	0.81[CEU][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes]
rs10866034	0.85[CEU][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13315808	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1353546	0.92[CEU][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1496649	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2049845	0.83[EUR][1000 genomes]
rs2049846	0.91[TSI][hapmap];0.83[EUR][1000 genomes]
rs2049847	0.80[TSI][hapmap]
rs2049848	0.83[EUR][1000 genomes]
rs2049849	0.84[EUR][1000 genomes]
rs2088310	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2088311	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4295132	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4679475	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62248493	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62248494	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6768733	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6768755	0.92[CEU][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6779529	0.92[CEU][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6797140	0.86[EUR][1000 genomes]
rs760322	0.81[CEU][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs760323	0.84[CEU][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs760324	0.81[CEU][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7611670	0.83[EUR][1000 genomes]
rs7631389	0.81[CEU][hapmap];0.81[GIH][hapmap];0.86[MEX][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7637894	0.85[EUR][1000 genomes]
rs7648865	1.00[JPT][hapmap]
rs9311756	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9311758	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9848465	0.86[EUR][1000 genomes]
rs9853628	0.80[EUR][1000 genomes]
rs9858300	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9867642	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014983	chr3:59884024-60558331	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv590387	chr3:59890976-60481459	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1009971	chr3:60070974-60397331	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2763751	chr3:60071959-60292312	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv529602	chr3:60088353-60830769	Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1010969	chr3:60124962-60425297	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv834708	chr3:60156091-60305452	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv2422232	chr3:60192201-60334555	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv876844	chr3:60256485-60362565	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv876845	chr3:60256485-60367607	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv1001134	chr3:60262617-60344190	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv590394	chr3:60289140-60388900	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:60286400-60290600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:60286800-60289400	Weak transcription	NHLF	lung
3	chr3:60287400-60289200	Weak transcription	Osteobl	bone
4	chr3:60287400-60289800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr3:60288000-60290200	Enhancers	Dnd41	blood
6	chr3:60288200-60289400	Enhancers	Primary T cells from cord blood	blood
7	chr3:60288400-60289600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr3:60288600-60289200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr3:60288800-60289200	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr3:60288800-60289400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr3:60288800-60289400	Enhancers	Liver	Liver
12	chr3:60288800-60289600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr3:60288800-60290000	Enhancers	Fetal Lung	lung
14	chr3:60288800-60290200	Enhancers	K562	blood
15	chr3:60289000-60289400	Enhancers	Primary T cells fromperipheralblood	blood
16	chr3:60289000-60289400	Enhancers	Fetal Thymus	thymus
17	chr3:60289000-60290200	Enhancers	Adipose Nuclei	Adipose
18	chr3:60289000-60290600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr3:60289000-60298200	Weak transcription	Fetal Heart	heart

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