Variant report

Variant	rs3741033
Chromosome Location	chr11:10614911-10614912
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AMPD3-1	chr11:10614744-10615046	ENSG00000177112.3

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10219205	0.85[JPT][hapmap]
rs10219352	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1062912	1.00[CEU][hapmap];0.85[CHB][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1065052	0.92[CEU][hapmap];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10770126	0.85[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs10840431	0.88[CEU][hapmap]
rs10840435	0.80[EUR][1000 genomes]
rs10840438	0.81[JPT][hapmap]
rs10840440	0.89[CEU][hapmap];0.86[CHB][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10840441	0.90[JPT][hapmap]
rs10840443	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840444	0.86[ASN][1000 genomes]
rs10840445	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10840446	0.91[CHB][hapmap];0.95[JPT][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10840448	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11042876	1.00[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11042877	0.96[CEU][hapmap];0.85[CHB][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11042882	0.95[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11042883	0.92[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11042893	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11042894	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11042895	0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs11042897	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11042898	0.84[ASN][1000 genomes]
rs11827503	0.84[ASN][1000 genomes]
rs12280275	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12288969	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12576545	0.84[ASN][1000 genomes]
rs12576547	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1531479	0.96[CEU][hapmap]
rs16907989	0.85[JPT][hapmap]
rs1964537	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2054392	0.96[CEU][hapmap]
rs2071018	0.88[CEU][hapmap]
rs2241489	0.82[ASN][1000 genomes]
rs2288236	0.96[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2303402	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34466373	0.80[EUR][1000 genomes]
rs34988160	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3741034	0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs3741041	0.92[CEU][hapmap]
rs3741042	0.82[ASN][1000 genomes]
rs3781863	0.80[EUR][1000 genomes]
rs61892975	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7114453	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7114603	0.81[ASN][1000 genomes]
rs7115310	0.96[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7115735	0.88[ASN][1000 genomes]
rs7118551	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7126245	0.85[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs724723	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7358373	1.00[CEU][hapmap];0.85[CHB][hapmap];0.85[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs746164	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs749045	0.86[ASN][1000 genomes]
rs881436	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs918981	0.81[ASN][1000 genomes]
rs964425	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs964426	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10586400-10620400	Weak transcription	Brain Anterior Caudate	brain
2	chr11:10592400-10622600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr11:10595000-10629600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr11:10595000-10632800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr11:10595400-10615400	Weak transcription	Brain Angular Gyrus	brain
6	chr11:10597200-10625800	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr11:10603600-10621800	Weak transcription	Brain Cingulate Gyrus	brain
8	chr11:10605200-10620400	Weak transcription	Fetal Thymus	thymus
9	chr11:10605800-10622200	Weak transcription	Spleen	Spleen
10	chr11:10606000-10620400	Weak transcription	Rectal Smooth Muscle	rectum
11	chr11:10607200-10616800	Enhancers	Placenta	Placenta
12	chr11:10607400-10626000	Weak transcription	Fetal Lung	lung
13	chr11:10608400-10616000	Enhancers	Placenta Amnion	Placenta Amnion
14	chr11:10608800-10625400	Weak transcription	Adipose Nuclei	Adipose
15	chr11:10609600-10616000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr11:10609600-10619600	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr11:10609600-10620800	Weak transcription	Brain Hippocampus Middle	brain
18	chr11:10610200-10617000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr11:10610600-10615000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr11:10610800-10618800	Weak transcription	Primary hematopoietic stem cells	blood
21	chr11:10611000-10616000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr11:10611200-10615200	Enhancers	NHDF-Ad	bronchial
23	chr11:10611400-10615800	Weak transcription	K562	blood
24	chr11:10611600-10625000	Weak transcription	Brain Substantia Nigra	brain
25	chr11:10611800-10615000	Genic enhancers	NHLF	lung
26	chr11:10611800-10615200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr11:10612000-10615600	Enhancers	NHEK	skin
28	chr11:10612200-10615000	Enhancers	Osteobl	bone
29	chr11:10612200-10615200	Genic enhancers	Primary neutrophils fromperipheralblood	blood
30	chr11:10612400-10615200	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr11:10612400-10616800	Enhancers	HMEC	breast
32	chr11:10612600-10616200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr11:10612800-10617400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr11:10613200-10615000	Enhancers	NH-A	brain
35	chr11:10613200-10615200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr11:10613200-10616000	Genic enhancers	Stomach Smooth Muscle	stomach
37	chr11:10613400-10619400	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr11:10613400-10620600	Weak transcription	Lung	lung
39	chr11:10613600-10615000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr11:10613600-10619400	Weak transcription	Primary B cells from peripheral blood	blood
41	chr11:10613800-10615800	Weak transcription	Hela-S3	cervix
42	chr11:10613800-10620600	Weak transcription	Psoas Muscle	Psoas
43	chr11:10614000-10615000	Enhancers	Monocytes-CD14+_RO01746	blood
44	chr11:10614000-10621200	Weak transcription	HSMMtube	muscle
45	chr11:10614200-10615000	Weak transcription	Colon Smooth Muscle	Colon
46	chr11:10614400-10619400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr11:10614600-10615000	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr11:10614600-10615000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr11:10614600-10616000	Enhancers	Esophagus	oesophagus
50	chr11:10614600-10616400	Strong transcription	Breast Myoepithelial Primary Cells	Breast

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