Variant report

Variant	rs62072030
Chromosome Location	chr17:15823839-15823840
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:15794765..15797289-chr17:15822819..15824762,2	MCF-7	breast:
2	chr17:15819602..15821859-chr17:15822735..15824245,2	MCF-7	breast:
3	chr17:15822515..15824157-chr17:15838082..15840784,2	K562	blood:

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs11654524	0.92[ASN][1000 genomes]
rs11655374	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11656489	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11656518	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11658370	0.86[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs11658454	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11658871	0.84[ASN][1000 genomes]
rs11870637	0.83[ASN][1000 genomes]
rs12051835	0.87[ASN][1000 genomes]
rs12603728	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12603863	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1558409	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1613538	0.87[ASN][1000 genomes]
rs1639393	0.87[ASN][1000 genomes]
rs1639394	0.93[ASN][1000 genomes]
rs17776817	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1797453	0.93[ASN][1000 genomes]
rs1797460	0.88[ASN][1000 genomes]
rs1797462	0.85[ASN][1000 genomes]
rs1889021	0.85[ASN][1000 genomes]
rs1974626	0.87[ASN][1000 genomes]
rs2429742	0.93[ASN][1000 genomes]
rs2535598	0.93[ASN][1000 genomes]
rs2535599	0.93[ASN][1000 genomes]
rs2586557	0.81[ASN][1000 genomes]
rs2779187	0.91[ASN][1000 genomes]
rs2787070	0.81[ASN][1000 genomes]
rs35160253	0.80[AMR][1000 genomes]
rs35743185	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3744329	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs3744330	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs3859260	0.88[ASN][1000 genomes]
rs4297751	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4791653	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4792704	0.95[ASN][1000 genomes]
rs4792705	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62071036	0.83[ASN][1000 genomes]
rs62071037	0.83[ASN][1000 genomes]
rs62071038	0.83[ASN][1000 genomes]
rs62072029	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62072031	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs62072032	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62072033	0.90[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs62072034	0.94[ASN][1000 genomes]
rs62072052	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs62072161	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs62072162	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs62072168	0.91[ASN][1000 genomes]
rs62072173	0.85[ASN][1000 genomes]
rs62072198	0.95[ASN][1000 genomes]
rs62072201	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62072203	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62072205	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6502475	0.94[ASN][1000 genomes]
rs708590	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs708591	0.97[EUR][1000 genomes]
rs708593	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7214215	0.95[ASN][1000 genomes]
rs7218000	0.85[ASN][1000 genomes]
rs7223657	0.90[ASN][1000 genomes]
rs7503620	0.86[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs8076401	0.94[ASN][1000 genomes]
rs8079686	0.92[ASN][1000 genomes]
rs8080194	0.92[ASN][1000 genomes]
rs859226	0.88[ASN][1000 genomes]
rs859228	0.88[ASN][1000 genomes]
rs859229	0.80[ASN][1000 genomes]
rs859230	0.88[ASN][1000 genomes]
rs859232	0.88[ASN][1000 genomes]
rs859234	0.88[ASN][1000 genomes]
rs859236	0.88[ASN][1000 genomes]
rs859237	0.88[ASN][1000 genomes]
rs859238	0.88[ASN][1000 genomes]
rs859240	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs859247	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs859248	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs859252	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs859253	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs859255	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs859256	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs859257	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9893636	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9894474	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9901375	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9903682	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9907878	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9912875	0.82[AMR][1000 genomes];0.91[ASN][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	nsv916652	chr17:15093600-15856310	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	nsv1059056	chr17:15294011-15856861	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv934185	chr17:15552960-16551197	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	190 gene(s)	inside rSNPs	diseases
4	nsv1062951	chr17:15561070-15890644	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	nsv1066023	chr17:15607267-16053512	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
6	esv3330182	chr17:15652014-16569534	Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
7	esv3446844	chr17:15654843-16572246	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
8	nsv1061222	chr17:15672934-15999778	ZNF genes & repeats Weak transcription Enhancers Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
9	nsv907706	chr17:15731923-16056442	ZNF genes & repeats Weak transcription Enhancers Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
10	nsv1067555	chr17:15804228-16001117	Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
11	nsv1063459	chr17:15804228-16543593	Weak transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	164 gene(s)	inside rSNPs	diseases
12	nsv1061987	chr17:15810017-15855135	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:15817200-15825000	Enhancers	Hela-S3	cervix
2	chr17:15820400-15824400	Weak transcription	HUVEC	blood vessel
3	chr17:15821200-15824000	Weak transcription	Osteobl	bone
4	chr17:15821600-15825000	Enhancers	A549	lung
5	chr17:15822000-15824800	Enhancers	Colon Smooth Muscle	Colon
6	chr17:15822400-15824400	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr17:15822400-15825000	Enhancers	HMEC	breast
8	chr17:15822600-15824400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr17:15823000-15828200	Weak transcription	Stomach Smooth Muscle	stomach
10	chr17:15823200-15829000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr17:15823400-15825000	Enhancers	NH-A	brain
12	chr17:15823600-15824000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr17:15823600-15824200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr17:15823600-15824600	Enhancers	Monocytes-CD14+_RO01746	blood
15	chr17:15823800-15824600	Enhancers	Placenta	Placenta
16	chr17:15823800-15824800	Enhancers	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links