Variant report

Variant	rs2733486
Chromosome Location	chr3:17317244-17317245
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 152 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:147)

rs_ID	r²[population]
rs10510475	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10865749	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11128829	1.00[CHB][hapmap]
rs11128830	1.00[CHB][hapmap]
rs11128833	1.00[CHB][hapmap]
rs11708391	0.81[EUR][1000 genomes]
rs11920557	1.00[CHB][hapmap]
rs11922534	1.00[CHB][hapmap]
rs11924970	1.00[CHB][hapmap]
rs11929394	1.00[CHB][hapmap]
rs12106762	1.00[CHB][hapmap]
rs12106770	1.00[CHB][hapmap]
rs12488093	0.83[CEU][hapmap]
rs13318886	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs1374197	0.85[CEU][hapmap]
rs1446301	1.00[CHB][hapmap]
rs1446303	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1449882	0.86[CEU][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1449883	0.80[CEU][hapmap]
rs1449884	0.80[CEU][hapmap]
rs1449885	0.85[EUR][1000 genomes]
rs1449886	0.80[CEU][hapmap]
rs1449887	0.85[EUR][1000 genomes]
rs1449888	0.85[EUR][1000 genomes]
rs1463218	0.80[CEU][hapmap]
rs1463222	0.83[CEU][hapmap];0.81[EUR][1000 genomes]
rs1470667	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1596863	1.00[CHB][hapmap]
rs1597393	0.82[CEU][hapmap]
rs17043492	0.85[CEU][hapmap]
rs17043541	0.81[CEU][hapmap]
rs17043556	1.00[CHB][hapmap]
rs17043558	1.00[CHB][hapmap]
rs17043565	1.00[CHB][hapmap]
rs17043568	1.00[CHB][hapmap]
rs17043571	1.00[CHB][hapmap]
rs17043574	1.00[CHB][hapmap]
rs17043578	1.00[CHB][hapmap]
rs17043579	1.00[CHB][hapmap]
rs17043623	1.00[CHB][hapmap]
rs17043631	1.00[CHB][hapmap]
rs17043643	1.00[CHB][hapmap]
rs17043652	1.00[CHB][hapmap]
rs17200818	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17200839	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1867772	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs187303	0.82[CEU][hapmap]
rs2028874	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2060623	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2060624	0.80[CEU][hapmap]
rs2060627	0.83[CEU][hapmap]
rs2060629	0.80[CEU][hapmap]
rs2121262	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2122368	0.82[CEU][hapmap]
rs2348003	0.80[CEU][hapmap]
rs2348004	0.81[CEU][hapmap];0.86[EUR][1000 genomes]
rs2348005	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs2470347	0.83[CEU][hapmap]
rs2470583	0.81[CEU][hapmap]
rs2592099	0.82[CEU][hapmap]
rs2596636	0.80[CEU][hapmap]
rs2596639	0.80[CEU][hapmap]
rs2596640	0.80[CEU][hapmap]
rs2596641	0.86[EUR][1000 genomes]
rs2596643	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs2596645	0.81[CEU][hapmap]
rs2596646	0.81[CEU][hapmap]
rs2596648	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs2596649	0.86[EUR][1000 genomes]
rs2596650	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs2596662	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs2596672	0.80[CEU][hapmap]
rs2596674	0.82[CEU][hapmap]
rs2596675	0.82[CEU][hapmap]
rs2596676	0.81[EUR][1000 genomes]
rs2596679	0.82[CEU][hapmap]
rs2596682	0.81[EUR][1000 genomes]
rs2733479	0.82[CEU][hapmap]
rs2733485	0.82[CEU][hapmap]
rs2733487	0.83[CEU][hapmap]
rs2733489	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2733491	0.82[CEU][hapmap]
rs2733492	0.86[CEU][hapmap];0.86[EUR][1000 genomes]
rs2733495	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs2733496	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs2733497	0.80[CEU][hapmap]
rs2733514	0.82[CEU][hapmap]
rs2733515	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2733517	0.80[CEU][hapmap]
rs2733519	0.81[CEU][hapmap]
rs2733522	0.81[EUR][1000 genomes]
rs2733523	0.81[CEU][hapmap]
rs2733525	0.81[EUR][1000 genomes]
rs283906	0.83[CEU][hapmap]
rs283907	0.82[CEU][hapmap]
rs283908	0.80[CEU][hapmap]
rs283909	0.83[CEU][hapmap]
rs283912	0.83[CEU][hapmap]
rs283914	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs283915	0.83[CEU][hapmap]
rs283916	0.83[CEU][hapmap]
rs283917	0.82[CEU][hapmap];0.82[EUR][1000 genomes]
rs283918	0.80[CEU][hapmap]
rs283919	0.80[CEU][hapmap]
rs283929	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs283930	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs283931	0.80[CEU][hapmap]
rs283934	0.82[AMR][1000 genomes]
rs283936	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs283940	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs283941	0.82[CEU][hapmap]
rs283942	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs283943	0.82[CEU][hapmap]
rs283945	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs283946	0.82[CEU][hapmap]
rs283947	0.82[CEU][hapmap]
rs283948	0.82[CEU][hapmap]
rs283949	0.83[CEU][hapmap]
rs4627740	1.00[CHB][hapmap]
rs6442682	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6762516	0.85[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes]
rs6763593	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs6766514	1.00[CHB][hapmap]
rs6788957	1.00[CHB][hapmap]
rs6792443	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6792589	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6792747	1.00[CHB][hapmap]
rs6801690	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6803999	1.00[CHB][hapmap]
rs6804323	1.00[CHB][hapmap]
rs7432241	1.00[CHB][hapmap]
rs7614318	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7617933	0.83[CEU][hapmap]
rs7625855	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7630433	0.80[CEU][hapmap]
rs7645756	0.80[CEU][hapmap]
rs7647905	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9817290	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs9820703	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs9824952	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9830240	0.86[CEU][hapmap];0.82[EUR][1000 genomes]
rs9843640	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9848766	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs9850127	0.86[CEU][hapmap];0.83[EUR][1000 genomes]
rs9851518	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9864494	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9878954	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876589	chr3:17230884-17346355	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv876590	chr3:17230884-17604963	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv2755406	chr3:17237396-17589896	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv876591	chr3:17246392-17671992	Weak transcription Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	esv3388594	chr3:17315948-17319746	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17250000-17330200	Weak transcription	Aorta	Aorta
2	chr3:17255200-17363800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:17273600-17330200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr3:17277600-17328600	Weak transcription	Primary T cells from cord blood	blood
5	chr3:17279400-17330200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr3:17279800-17329600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr3:17296600-17330200	Weak transcription	Left Ventricle	heart
8	chr3:17298800-17373000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr3:17301400-17335400	Weak transcription	Ovary	ovary
10	chr3:17307400-17321800	Weak transcription	Fetal Intestine Small	intestine
11	chr3:17311000-17330400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr3:17313600-17320800	Weak transcription	Primary B cells from cord blood	blood
13	chr3:17313800-17332200	Weak transcription	Primary hematopoietic stem cells	blood
14	chr3:17315000-17332400	Weak transcription	GM12878-XiMat	blood
15	chr3:17315200-17321800	Weak transcription	Gastric	stomach
16	chr3:17315800-17330200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr3:17316000-17321400	Weak transcription	Primary B cells from peripheral blood	blood
18	chr3:17316200-17330200	Weak transcription	Fetal Intestine Large	intestine

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