Variant report

Variant	rs11239687
Chromosome Location	chr10:43078282-43078283
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF33B-3	chr10:43078139-43078571	ENSG00000272373.1

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10490937	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs149350	1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs158367	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs158368	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs158370	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs158371	0.88[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs158372	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs158374	0.84[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs158380	0.82[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs158381	0.82[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs158383	0.92[ASN][1000 genomes]
rs158387	1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs209382	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs209383	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs209384	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs289184	0.94[ASN][1000 genomes]
rs289185	0.91[ASN][1000 genomes]
rs289189	0.92[ASN][1000 genomes]
rs289190	0.92[ASN][1000 genomes]
rs289191	0.92[ASN][1000 genomes]
rs289192	0.92[ASN][1000 genomes]
rs491625	0.89[ASN][1000 genomes]
rs504209	1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs521852	1.00[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs594295	0.86[ASN][1000 genomes]
rs615096	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs626062	0.86[ASN][1000 genomes]
rs655987	0.86[ASN][1000 genomes]
rs787311	1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7924018	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817455	chr10:42607635-43151812	Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	nsv550670	chr10:42725663-43089965	Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv550672	chr10:42753190-43441729	Bivalent Enhancer Genic enhancers Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
4	nsv895064	chr10:42783481-43243325	Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Weak transcription Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv533331	chr10:42830221-43356410	ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
6	nsv1042764	chr10:42846383-43511712	Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
7	nsv1050394	chr10:42890663-43604956	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
8	nsv540573	chr10:42890663-43604956	Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
9	nsv534548	chr10:42890664-43729688	Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
10	nsv469725	chr10:42965130-43178323	Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
11	nsv482513	chr10:42965130-43178323	Weak transcription ZNF genes & repeats Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
12	esv2758216	chr10:42965131-43510191	Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
13	esv2759746	chr10:42965131-43510191	Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
14	nsv947885	chr10:43072880-43078467	Weak transcription ZNF genes & repeats Strong transcription	TF binding region lncRNA	3 gene(s)	inside rSNPs	diseases
15	nsv948329	chr10:43077967-43079685	ZNF genes & repeats Weak transcription Strong transcription	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:43076000-43088400	Weak transcription	Brain Cingulate Gyrus	brain
2	chr10:43076200-43079400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr10:43076400-43079000	Weak transcription	Fetal Intestine Large	intestine
4	chr10:43076400-43083000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr10:43076600-43080400	Weak transcription	Right Ventricle	heart
6	chr10:43076600-43083400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr10:43076800-43082400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr10:43076800-43083000	Weak transcription	Thymus	Thymus
9	chr10:43076800-43087000	Weak transcription	Fetal Heart	heart
10	chr10:43077000-43080400	Weak transcription	Fetal Lung	lung
11	chr10:43077000-43083000	Weak transcription	Left Ventricle	heart
12	chr10:43077000-43083000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr10:43077400-43081400	Weak transcription	Primary B cells from cord blood	blood
14	chr10:43077600-43081400	ZNF genes & repeats	Fetal Brain Female	brain
15	chr10:43077600-43088000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr10:43077800-43078800	ZNF genes & repeats	Duodenum Mucosa	Duodenum
17	chr10:43077800-43078800	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
18	chr10:43077800-43079800	ZNF genes & repeats	Ovary	ovary
19	chr10:43077800-43083000	Weak transcription	Rectal Smooth Muscle	rectum
20	chr10:43077800-43109600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr10:43078000-43078800	ZNF genes & repeats	Fetal Stomach	stomach
22	chr10:43078000-43079600	ZNF genes & repeats	Lung	lung
23	chr10:43078200-43079000	Strong transcription	Pancreas	Pancrea
24	chr10:43078200-43079600	ZNF genes & repeats	Fetal Intestine Small	intestine
25	chr10:43078200-43080600	Strong transcription	Breast Myoepithelial Primary Cells	Breast

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