Variant report

Variant	rs60943644
Chromosome Location	chr5:178349136-178349137
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF454-2	chr5:178349065-178349717	NONHSAT105562

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10052356	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10434802	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11249604	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17663795	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3925227	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62395089	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72816639	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7712073	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7723421	0.81[ASN][1000 genomes]
rs961030	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:39 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883218	chr5:178219855-178349391	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv600464	chr5:178344648-178350709	ZNF genes & repeats Weak transcription Strong transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv600465	chr5:178344648-178352002	ZNF genes & repeats Weak transcription Strong transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv600466	chr5:178344648-178352245	ZNF genes & repeats Weak transcription Strong transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv600467	chr5:178344648-178352820	ZNF genes & repeats Weak transcription Strong transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv600468	chr5:178344648-178353156	Weak transcription ZNF genes & repeats Strong transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv819936	chr5:178345813-178351240	ZNF genes & repeats Weak transcription Strong transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv823354	chr5:178345876-178351699	ZNF genes & repeats Weak transcription Strong transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv821324	chr5:178345876-178353585	ZNF genes & repeats Weak transcription Strong transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv823355	chr5:178346031-178351699	Weak transcription ZNF genes & repeats Strong transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv5156	chr5:178346825-178367067	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	esv3470265	chr5:178348231-178353308	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
13	esv3470264	chr5:178348285-178353276	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
14	esv3470262	chr5:178348302-178353229	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
15	esv3470266	chr5:178348363-178353198	Weak transcription ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
16	esv12223	chr5:178348371-178353189	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
17	esv1833783	chr5:178348445-178353156	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
18	esv1835389	chr5:178348445-178353321	Weak transcription ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
19	esv1837400	chr5:178348445-178353321	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
20	esv1839542	chr5:178348445-178353321	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
21	esv1839395	chr5:178348554-178350709	ZNF genes & repeats Weak transcription	lncRNA	n/a	inside rSNPs	diseases
22	nsv600469	chr5:178348554-178350709	ZNF genes & repeats Weak transcription	lncRNA	n/a	inside rSNPs	diseases
23	nsv600470	chr5:178348554-178351391	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
24	nsv600471	chr5:178348554-178352245	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
25	nsv600472	chr5:178348554-178352386	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
26	nsv600473	chr5:178348554-178352820	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
27	esv1835813	chr5:178348554-178353156	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
28	nsv600474	chr5:178348554-178353156	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
29	esv1841499	chr5:178348554-178353321	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
30	nsv600475	chr5:178348605-178352002	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
31	nsv600476	chr5:178348605-178352245	Weak transcription ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
32	nsv600477	chr5:178348605-178352820	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
33	esv1839898	chr5:178348605-178353156	Weak transcription ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
34	esv1841549	chr5:178348605-178353156	Weak transcription ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
35	nsv600478	chr5:178348933-178352245	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
36	nsv600479	chr5:178348933-178353156	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
37	nsv600480	chr5:178349057-178351512	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
38	nsv600481	chr5:178349057-178352245	ZNF genes & repeats Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
39	nsv964988	chr5:178349100-178353458	ZNF genes & repeats Weak transcription	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178335800-178367000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
2	chr5:178341600-178367000	ZNF genes & repeats	Fetal Brain Female	brain
3	chr5:178343000-178367200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
4	chr5:178345600-178349400	Weak transcription	Primary T cells from cord blood	blood
5	chr5:178346400-178351000	ZNF genes & repeats	Brain Hippocampus Middle	brain
6	chr5:178346600-178349800	ZNF genes & repeats	Colon Smooth Muscle	Colon
7	chr5:178347800-178350400	ZNF genes & repeats	Brain Anterior Caudate	brain
8	chr5:178347800-178350400	ZNF genes & repeats	Brain Substantia Nigra	brain
9	chr5:178347800-178352400	ZNF genes & repeats	Fetal Lung	lung
10	chr5:178347800-178366800	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
11	chr5:178347800-178367400	ZNF genes & repeats	Adipose Nuclei	Adipose
12	chr5:178348000-178349600	ZNF genes & repeats	Brain Cingulate Gyrus	brain
13	chr5:178348000-178349800	ZNF genes & repeats	Aorta	Aorta
14	chr5:178348000-178349800	ZNF genes & repeats	Brain Angular Gyrus	brain
15	chr5:178348000-178349800	ZNF genes & repeats	Ovary	ovary
16	chr5:178348000-178349800	ZNF genes & repeats	Pancreas	Pancrea
17	chr5:178348000-178350400	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
18	chr5:178348000-178359800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr5:178348000-178360200	ZNF genes & repeats	Left Ventricle	heart
20	chr5:178348200-178349600	ZNF genes & repeats	Placenta	Placenta
21	chr5:178348200-178349800	ZNF genes & repeats	Fetal Brain Male	brain
22	chr5:178348200-178350000	Weak transcription	Fetal Kidney	kidney
23	chr5:178348600-178352400	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr5:178348800-178350200	Weak transcription	Fetal Stomach	stomach
25	chr5:178348800-178352200	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr5:178348800-178357800	Weak transcription	Placenta Amnion	Placenta Amnion

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