Variant report

Variant	rs12289817
Chromosome Location	chr11:86143682-86143683
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCDC81-1	chr11:86143461-86143684	ENSG00000254733.1

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10466700	1.00[ASN][1000 genomes]
rs10466729	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10466730	1.00[ASN][1000 genomes]
rs11234647	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11234648	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11824889	1.00[ASN][1000 genomes]
rs11825033	0.82[EUR][1000 genomes]
rs11828146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11828283	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12269969	0.82[EUR][1000 genomes]
rs12270471	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12270570	0.82[AFR][1000 genomes]
rs12270761	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12270790	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12272259	0.83[ASN][1000 genomes]
rs12273667	0.87[AFR][1000 genomes]
rs12276248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12277432	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12278247	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12280555	1.00[ASN][1000 genomes]
rs12280833	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12281645	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12283035	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12285249	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12288560	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12291532	0.96[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12292316	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12293159	0.99[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12293545	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12294756	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12804130	1.00[ASN][1000 genomes]
rs12804407	1.00[ASN][1000 genomes]
rs12805940	1.00[ASN][1000 genomes]
rs1452136	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1452137	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1458381	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17149063	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17149064	0.81[AFR][1000 genomes]
rs17819176	1.00[ASN][1000 genomes]
rs2242142	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2279047	1.00[ASN][1000 genomes]
rs34416639	1.00[ASN][1000 genomes]
rs34939684	1.00[ASN][1000 genomes]
rs35686713	1.00[ASN][1000 genomes]
rs3741001	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3741002	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3741003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3781806	1.00[ASN][1000 genomes]
rs3781813	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3824953	1.00[ASN][1000 genomes]
rs56009909	1.00[ASN][1000 genomes]
rs58228993	1.00[ASN][1000 genomes]
rs58354189	1.00[ASN][1000 genomes]
rs66833360	1.00[ASN][1000 genomes]
rs66872826	1.00[ASN][1000 genomes]
rs7107941	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7122296	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7122406	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7129977	1.00[ASN][1000 genomes]
rs72953614	1.00[ASN][1000 genomes]
rs7932664	1.00[ASN][1000 genomes]
rs7948566	1.00[ASN][1000 genomes]
rs7948764	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers 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

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86118200-86151000	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr11:86136200-86145000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr11:86136800-86170200	Weak transcription	Fetal Heart	heart
4	chr11:86138600-86167400	Weak transcription	Fetal Lung	lung
5	chr11:86140800-86153400	Weak transcription	Right Ventricle	heart
6	chr11:86140800-86155800	Weak transcription	Psoas Muscle	Psoas
7	chr11:86141000-86153400	Weak transcription	Brain Anterior Caudate	brain
8	chr11:86141200-86149800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr11:86141400-86149600	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr11:86142000-86144200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr11:86142000-86151400	Weak transcription	Adipose Nuclei	Adipose
12	chr11:86142000-86153600	Weak transcription	Brain Angular Gyrus	brain
13	chr11:86142000-86167400	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr11:86142400-86144000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr11:86142400-86144400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr11:86142400-86151200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr11:86142600-86143800	ZNF genes & repeats	Fetal Brain Female	brain
18	chr11:86142600-86151200	Weak transcription	Fetal Stomach	stomach
19	chr11:86142600-86153400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr11:86142600-86155000	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr11:86142600-86156000	Weak transcription	Spleen	Spleen
22	chr11:86142800-86144600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr11:86142800-86146600	Weak transcription	Aorta	Aorta
24	chr11:86142800-86151000	Weak transcription	Stomach Smooth Muscle	stomach
25	chr11:86142800-86152000	Weak transcription	Brain Germinal Matrix	brain
26	chr11:86142800-86157600	Weak transcription	Gastric	stomach
27	chr11:86143000-86153400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr11:86143200-86145200	Strong transcription	Ovary	ovary
29	chr11:86143400-86151400	Weak transcription	NH-A	brain
30	chr11:86143600-86145400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr11:86143600-86148200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr11:86143600-86151000	Weak transcription	Fetal Muscle Leg	muscle
33	chr11:86143600-86151000	Weak transcription	Left Ventricle	heart
34	chr11:86143600-86151400	Weak transcription	Primary hematopoietic stem cells	blood
35	chr11:86143600-86153600	Weak transcription	Fetal Intestine Small	intestine

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