Variant report

Variant	rs13076033
Chromosome Location	chr3:52898427-52898428
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10510761	0.91[CEU][hapmap]
rs11130329	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1139106	1.00[CHB][hapmap]
rs11626	1.00[CHB][hapmap]
rs11706035	0.90[CEU][hapmap]
rs11707780	0.91[CEU][hapmap]
rs11707829	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11708390	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11710394	0.91[CEU][hapmap]
rs11712498	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11712653	0.91[CEU][hapmap]
rs11713324	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11713479	0.90[ASN][1000 genomes]
rs11714793	1.00[ASN][1000 genomes]
rs11715231	0.82[AMR][1000 genomes]
rs11717619	0.91[CEU][hapmap]
rs11717749	1.00[CHB][hapmap]
rs11718060	1.00[CHB][hapmap]
rs11718834	0.91[CEU][hapmap]
rs11720228	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs11720233	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs13060282	1.00[ASN][1000 genomes]
rs13069006	0.91[CEU][hapmap]
rs13072395	0.89[CEU][hapmap]
rs13072818	0.91[CEU][hapmap]
rs13089969	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13091844	0.91[CEU][hapmap]
rs1346719	0.91[CEU][hapmap]
rs17052727	0.91[CEU][hapmap]
rs17331151	1.00[CHB][hapmap]
rs17331178	1.00[CHB][hapmap]
rs1986656	1.00[ASN][1000 genomes]
rs2001732	1.00[CHB][hapmap]
rs2240916	1.00[CHB][hapmap]
rs2336661	0.95[ASN][1000 genomes]
rs2336665	1.00[ASN][1000 genomes]
rs33999310	0.91[EUR][1000 genomes]
rs34026403	1.00[ASN][1000 genomes]
rs35230793	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35651539	1.00[ASN][1000 genomes]
rs3796352	0.91[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3806692	0.91[CEU][hapmap]
rs6798472	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs71299621	1.00[ASN][1000 genomes]
rs71299622	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs750474	0.91[CEU][hapmap]
rs9756317	0.91[CEU][hapmap]
rs9831977	0.84[CEU][hapmap];1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834698	chr3:52749983-52928219	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
2	esv2762328	chr3:52774884-53002150	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	esv3446915	chr3:52786850-53049217	Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13076033	TMEM110	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52870000-52901000	Weak transcription	Fetal Brain Male	brain
2	chr3:52884000-52907400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:52885400-52899600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:52886200-52907800	Weak transcription	NHLF	lung
5	chr3:52886600-52899800	Weak transcription	Dnd41	blood
6	chr3:52886600-52907600	Weak transcription	Brain Hippocampus Middle	brain
7	chr3:52886600-52907800	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr3:52886600-52908600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr3:52886600-52911000	Weak transcription	Primary B cells from cord blood	blood
10	chr3:52886600-52920000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr3:52886600-52930200	Weak transcription	Colonic Mucosa	Colon
12	chr3:52886800-52900400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr3:52886800-52907600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr3:52887000-52898600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr3:52887000-52919400	Weak transcription	Fetal Brain Female	brain
16	chr3:52887000-52926400	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr3:52887800-52923200	Weak transcription	Brain Germinal Matrix	brain
18	chr3:52888000-52900000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr3:52888000-52900000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr3:52888600-52902600	Weak transcription	Brain Anterior Caudate	brain
21	chr3:52889800-52909400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr3:52890000-52907800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr3:52890000-52908600	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr3:52890000-52908800	Weak transcription	Primary T helper cells fromperipheralblood	blood
25	chr3:52891400-52901600	Weak transcription	Right Atrium	heart
26	chr3:52891600-52909400	Weak transcription	Ovary	ovary
27	chr3:52891600-52919600	Weak transcription	Left Ventricle	heart
28	chr3:52892000-52926400	Weak transcription	Rectal Smooth Muscle	rectum
29	chr3:52892200-52906000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr3:52892600-52903200	Weak transcription	Brain Substantia Nigra	brain
31	chr3:52892600-52907800	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr3:52894600-52904000	Weak transcription	Pancreas	Pancrea
33	chr3:52894600-52911200	Weak transcription	Stomach Smooth Muscle	stomach
34	chr3:52894800-52899800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr3:52894800-52907600	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr3:52895000-52898600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr3:52895000-52909000	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr3:52895200-52900400	Weak transcription	Lung	lung
39	chr3:52895400-52899800	Weak transcription	Aorta	Aorta
40	chr3:52895400-52900200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr3:52895400-52904600	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr3:52895400-52907400	Weak transcription	Brain Angular Gyrus	brain
43	chr3:52895400-52919400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr3:52895600-52900000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr3:52895600-52900000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr3:52895600-52900400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr3:52895600-52904800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr3:52895800-52923800	Weak transcription	Brain Cingulate Gyrus	brain
49	chr3:52895800-52925200	Weak transcription	Esophagus	oesophagus
50	chr3:52896000-52899600	Weak transcription	Thymus	Thymus

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