Variant report

Variant	rs11015291
Chromosome Location	chr10:27084872-27084873
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PDSS1-6	chr10:27084559-27085482	ncRnaDb_ncrna_FR197548_1

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10764644	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10764645	0.99[ASN][1000 genomes]
rs10764654	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10829065	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10829076	0.95[ASN][1000 genomes]
rs10829086	1.00[CEU][hapmap]
rs10829099	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10829103	0.90[ASN][1000 genomes]
rs10829115	0.87[ASN][1000 genomes]
rs11015260	0.82[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11015261	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11015272	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11015279	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11015280	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11015284	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11015286	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11015289	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11015305	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11015309	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11015320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11015321	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11015322	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11015349	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12243481	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12256219	0.95[ASN][1000 genomes]
rs12356134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12357198	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17754347	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3758440	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4463751	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7078094	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7094688	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72629732	0.94[AMR][1000 genomes]
rs7914180	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7923125	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9299834	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3415799	chr10:26929831-27233591	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv933544	chr10:27005220-27111998	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv831812	chr10:27061506-27234267	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv971858	chr10:27066006-27157708	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27070800-27091800	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr10:27071200-27089000	Weak transcription	Lung	lung
3	chr10:27071200-27089600	Weak transcription	Spleen	Spleen
4	chr10:27071400-27088600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr10:27073000-27087000	Weak transcription	Thymus	Thymus
6	chr10:27073000-27088200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr10:27074800-27091600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr10:27074800-27091800	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr10:27075000-27087000	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr10:27075000-27087000	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr10:27075000-27089400	Weak transcription	Left Ventricle	heart
12	chr10:27075000-27091600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr10:27075000-27104600	Weak transcription	Esophagus	oesophagus
14	chr10:27075200-27088400	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr10:27079800-27085000	Weak transcription	Primary hematopoietic stem cells	blood
16	chr10:27079800-27091800	Weak transcription	Fetal Heart	heart
17	chr10:27079800-27092200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr10:27080800-27092000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr10:27082200-27088400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr10:27082200-27105400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr10:27082400-27085400	Weak transcription	Fetal Lung	lung
22	chr10:27082400-27086400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr10:27082600-27085000	Weak transcription	Primary B cells from cord blood	blood
24	chr10:27082600-27087000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr10:27082600-27091600	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr10:27082600-27094000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr10:27082800-27086200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr10:27082800-27086400	Weak transcription	Brain Cingulate Gyrus	brain
29	chr10:27082800-27086600	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr10:27082800-27087600	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr10:27082800-27088400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
32	chr10:27083400-27087800	ZNF genes & repeats	GM12878-XiMat	blood
33	chr10:27083600-27087000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr10:27083600-27089800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr10:27083600-27094800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr10:27084200-27085200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
37	chr10:27084200-27086000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr10:27084200-27086800	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr10:27084400-27085200	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
40	chr10:27084600-27085600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr10:27084600-27086000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr10:27084600-27086400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr10:27084800-27085000	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
44	chr10:27084800-27085000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
45	chr10:27084800-27085000	ZNF genes & repeats	Fetal Intestine Large	intestine
46	chr10:27084800-27086000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood

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