Variant report

Variant	rs1862628
Chromosome Location	chr5:42723128-42723129
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:42713523..42715301-chr5:42722413..42724340,2	K562	blood:
2	chr5:42722211..42724712-chr5:42729125..42731902,2	K562	blood:

Variant related genes	Relation type
ENSG00000270513	Chromatin interaction
ENSG00000112964	Chromatin interaction

Extended variants
information (count: 151 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:143)

rs_ID	r²[population]
rs1046068	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10462041	0.81[EUR][1000 genomes]
rs1074263	0.93[ASN][1000 genomes]
rs10941585	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10941586	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10941587	0.80[EUR][1000 genomes]
rs10941591	0.82[ASN][1000 genomes]
rs10941592	0.91[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10941593	0.91[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11952526	0.90[CEU][hapmap]
rs11953691	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11957181	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12054838	0.85[EUR][1000 genomes]
rs12055087	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12055266	0.80[EUR][1000 genomes]
rs12187466	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12187996	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12516157	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12517008	0.88[ASN][1000 genomes]
rs12517112	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12518414	0.87[EUR][1000 genomes]
rs12519532	0.91[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12521615	0.91[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13167366	0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs1345824	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1345825	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1364024	0.86[EUR][1000 genomes]
rs1364026	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1423653	0.93[ASN][1000 genomes]
rs1423654	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1423656	0.85[ASN][1000 genomes]
rs1593070	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1593071	0.93[ASN][1000 genomes]
rs17231271	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1862629	0.90[ASN][1000 genomes]
rs1862630	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs1895457	0.93[ASN][1000 genomes]
rs2014958	0.93[ASN][1000 genomes]
rs2113086	0.91[CEU][hapmap]
rs2113088	0.91[ASN][1000 genomes]
rs230807	0.93[ASN][1000 genomes]
rs230812	0.92[ASN][1000 genomes]
rs230813	0.92[ASN][1000 genomes]
rs230814	0.90[ASN][1000 genomes]
rs230816	0.91[ASN][1000 genomes]
rs230819	0.91[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs230820	0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs2459629	0.93[ASN][1000 genomes]
rs28919269	0.89[EUR][1000 genomes]
rs28919892	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28919916	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2910851	0.93[ASN][1000 genomes]
rs2910855	0.93[ASN][1000 genomes]
rs2910856	0.93[ASN][1000 genomes]
rs2910862	0.93[ASN][1000 genomes]
rs2910864	0.93[ASN][1000 genomes]
rs2910871	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2910875	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2910880	0.91[ASN][1000 genomes]
rs2910881	0.86[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs2972756	0.91[ASN][1000 genomes]
rs2972757	0.90[ASN][1000 genomes]
rs2972758	0.88[ASN][1000 genomes]
rs2972759	0.89[ASN][1000 genomes]
rs2972761	0.91[ASN][1000 genomes]
rs2972763	0.90[ASN][1000 genomes]
rs2972767	0.93[ASN][1000 genomes]
rs2972783	0.93[ASN][1000 genomes]
rs2972992	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2972994	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs2972998	0.93[ASN][1000 genomes]
rs2972999	0.93[ASN][1000 genomes]
rs2973000	0.93[ASN][1000 genomes]
rs2973001	0.93[ASN][1000 genomes]
rs2973006	0.93[ASN][1000 genomes]
rs2973011	0.93[ASN][1000 genomes]
rs2973015	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2973018	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2973023	0.95[ASN][1000 genomes]
rs2973028	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2973029	0.93[ASN][1000 genomes]
rs2973031	0.84[ASN][1000 genomes]
rs34443829	0.80[ASN][1000 genomes]
rs35293842	0.88[ASN][1000 genomes]
rs3797310	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3797311	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3866438	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3870358	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3870359	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3906418	0.80[EUR][1000 genomes]
rs4143864	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4242120	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4242121	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4866794	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4866797	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4866798	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4866800	0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs4866801	0.95[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs4866802	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4866949	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4866952	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4866954	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4866958	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4866959	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4866961	0.80[EUR][1000 genomes]
rs4866962	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4866963	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55651065	0.80[EUR][1000 genomes]
rs55660133	0.87[EUR][1000 genomes]
rs55801363	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs55881749	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs55928305	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56273800	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56300261	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56394865	0.80[EUR][1000 genomes]
rs56848171	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs58429632	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs59184964	0.85[EUR][1000 genomes]
rs6180	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs62370873	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62370874	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62370911	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62370912	0.86[EUR][1000 genomes]
rs62370950	0.83[ASN][1000 genomes]
rs62370952	0.83[ASN][1000 genomes]
rs62370955	0.82[ASN][1000 genomes]
rs62372042	0.88[EUR][1000 genomes]
rs62373001	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62373002	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6865453	0.91[CEU][hapmap]
rs6882333	0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs6899268	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs719756	0.95[ASN][1000 genomes]
rs722678	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7579	0.95[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7708223	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7708337	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7725776	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7725961	0.91[CEU][hapmap];0.87[EUR][1000 genomes]
rs7734918	0.91[CEU][hapmap];0.80[EUR][1000 genomes]
rs8180394	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8180482	0.80[EUR][1000 genomes]
rs9637794	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933208	chr5:41879946-42876624	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	112 gene(s)	inside rSNPs	diseases
2	nsv492147	chr5:41902086-42896162	Enhancers Flanking Active TSS Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	113 gene(s)	inside rSNPs	diseases
3	nsv1031160	chr5:42610090-42843255	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1019696	chr5:42610090-42844191	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv597886	chr5:42610409-42854408	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1029933	chr5:42611976-42833385	Enhancers Transcr. at gene 5' and 3' Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv537735	chr5:42611976-42833385	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv993554	chr5:42720939-43251863	Bivalent/Poised TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	298 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1862628	CCDC152	cis	Artery Tibial	GTEx

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:42719400-42723400	Weak transcription	Fetal Intestine Large	intestine
2	chr5:42719600-42723800	Weak transcription	Fetal Muscle Leg	muscle
3	chr5:42719600-42723800	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr5:42719600-42724000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr5:42719800-42723800	Weak transcription	Fetal Lung	lung
6	chr5:42719800-42724200	Weak transcription	Left Ventricle	heart
7	chr5:42721200-42723800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr5:42722200-42723800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr5:42722400-42725000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr5:42722600-42724200	Weak transcription	Adipose Nuclei	Adipose
11	chr5:42722600-42726000	Weak transcription	Aorta	Aorta
12	chr5:42722800-42723400	Weak transcription	Osteobl	bone
13	chr5:42722800-42724600	Weak transcription	Liver	Liver

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