Variant report

Variant	rs11658370
Chromosome Location	chr17:15789202-15789203
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:15788370..15791029-chr17:15792412..15794241,3	MCF-7	breast:
2	chr17:15787293..15789868-chr17:15796195..15798125,2	K562	blood:
3	chr17:15786537..15789462-chr17:15796062..15797687,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZSWIM7-7	chr17:15788959-15789222	predAs_ge08_ADORA2B_1

Extended variants
information (count: 113 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs11651258	0.83[ASN][1000 genomes]
rs11654524	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11655374	0.82[ASN][1000 genomes]
rs11656489	0.82[ASN][1000 genomes]
rs11656518	0.82[ASN][1000 genomes]
rs11658454	0.95[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs11658871	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11870637	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12051835	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12603728	0.92[ASN][1000 genomes]
rs12603863	0.95[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs1558409	0.95[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs1613538	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1639393	0.80[ASN][1000 genomes]
rs1639394	0.85[ASN][1000 genomes]
rs17776817	0.86[ASN][1000 genomes]
rs1797453	0.85[ASN][1000 genomes]
rs1797460	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1797462	0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1889021	0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1974626	0.80[ASN][1000 genomes]
rs2429742	0.85[ASN][1000 genomes]
rs2535598	0.85[ASN][1000 genomes]
rs2535599	0.85[ASN][1000 genomes]
rs2586557	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2779187	0.84[ASN][1000 genomes]
rs2787070	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35743185	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3744329	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3744330	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3859260	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3925260	0.83[ASN][1000 genomes]
rs4297751	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4791642	0.83[ASN][1000 genomes]
rs4791653	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs4792704	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4792705	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62071036	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62071037	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62071038	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62072029	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62072030	0.86[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs62072031	0.87[ASN][1000 genomes]
rs62072032	0.95[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs62072033	0.87[ASN][1000 genomes]
rs62072034	0.86[ASN][1000 genomes]
rs62072052	0.82[ASN][1000 genomes]
rs62072161	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62072162	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62072168	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62072173	0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62072198	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62072201	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62072203	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62072205	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6502475	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs708590	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs708593	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7214215	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7218000	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7223657	0.83[ASN][1000 genomes]
rs7503620	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8076401	0.86[ASN][1000 genomes]
rs8079686	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8080194	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs859226	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs859228	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs859229	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs859230	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs859232	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs859233	0.84[EUR][1000 genomes]
rs859234	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs859236	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs859237	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs859238	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs859240	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs859247	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs859248	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs859252	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs859253	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs859255	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs859256	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs859257	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9893636	0.84[ASN][1000 genomes]
rs9894474	0.80[ASN][1000 genomes]
rs9901375	0.82[ASN][1000 genomes]
rs9903682	0.82[ASN][1000 genomes]
rs9907878	0.84[ASN][1000 genomes]
rs9912875	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:24 , 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	nsv1993	chr17:15759198-15799029	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	esv1796880	chr17:15764507-15793669	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	esv1806276	chr17:15764992-15794687	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv574463	chr17:15786573-15792728	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
14	esv1804775	chr17:15786573-15792883	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
15	esv1805668	chr17:15786573-15792883	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
16	esv1814199	chr17:15786573-15793669	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
17	nsv574464	chr17:15786573-15793669	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
18	nsv574465	chr17:15787087-15793443	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
19	esv3314146	chr17:15787527-15792925	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
20	nsv435677	chr17:15788475-15794020	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
21	nsv510700	chr17:15788617-15798726	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
22	esv3494044	chr17:15788627-15794925	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
23	esv3314145	chr17:15788752-15792100	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
24	esv3314147	chr17:15788752-15792100	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:15782600-15799000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr17:15784200-15790400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr17:15785800-15790000	Weak transcription	Fetal Muscle Leg	muscle
4	chr17:15786400-15790200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr17:15786800-15790000	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr17:15787200-15790200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr17:15787600-15790200	Weak transcription	HMEC	breast
8	chr17:15787600-15794000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr17:15787600-15795800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr17:15787600-15796200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr17:15789000-15789600	Enhancers	HUVEC	blood vessel
12	chr17:15789000-15790800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr17:15789200-15789400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr17:15789200-15789600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr17:15789200-15789600	Enhancers	NHDF-Ad	bronchial
16	chr17:15789200-15790400	Enhancers	GM12878-XiMat	blood
17	chr17:15789200-15790600	Enhancers	K562	blood
18	chr17:15789200-15791000	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr17:15789200-15791000	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr17:15789200-15791000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links