Variant report

Variant	rs11050096
Chromosome Location	chr12:29324505-29324506
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RP11-677C1.2.1-3	chr12:29324311-29324983	NONHSAT027482

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10843330	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10843331	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10843332	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10843333	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10843334	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10843336	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10843338	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11050039	0.80[AMR][1000 genomes]
rs11050046	0.80[EUR][1000 genomes]
rs11050076	0.84[EUR][1000 genomes]
rs11050077	0.84[EUR][1000 genomes]
rs11050078	0.83[EUR][1000 genomes]
rs11050095	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11050103	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11050113	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11050125	0.96[EUR][1000 genomes]
rs11050129	0.96[EUR][1000 genomes]
rs12228075	0.80[AMR][1000 genomes]
rs12306316	0.82[EUR][1000 genomes]
rs12581588	0.96[EUR][1000 genomes]
rs1390536	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1390537	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1587186	0.80[EUR][1000 genomes]
rs34844277	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73071989	0.84[EUR][1000 genomes]
rs7309466	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]

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	nsv532233	chr12:29009388-29496179	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription 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	18 gene(s)	inside rSNPs	diseases
2	nsv995123	chr12:29095272-29571558	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers 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	35 gene(s)	inside rSNPs	diseases
3	nsv1053641	chr12:29268813-29854413	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS 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

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:29306600-29324600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr12:29317600-29340800	Weak transcription	Left Ventricle	heart
3	chr12:29317800-29326800	Weak transcription	Primary T cells from cord blood	blood
4	chr12:29318200-29326200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr12:29318400-29324600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr12:29318400-29329600	Weak transcription	NHLF	lung
7	chr12:29321200-29325200	Weak transcription	Rectal Smooth Muscle	rectum
8	chr12:29321800-29327000	Weak transcription	Small Intestine	intestine
9	chr12:29322400-29335600	Weak transcription	Gastric	stomach
10	chr12:29323000-29329600	Weak transcription	Adipose Nuclei	Adipose
11	chr12:29323000-29332400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr12:29323200-29324600	Weak transcription	Duodenum Mucosa	Duodenum
13	chr12:29323400-29327000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr12:29323800-29324600	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr12:29324000-29325400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
16	chr12:29324000-29325400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr12:29324000-29325600	ZNF genes & repeats	Fetal Intestine Small	intestine
18	chr12:29324000-29325800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr12:29324000-29326000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
20	chr12:29324000-29329600	Weak transcription	Primary hematopoietic stem cells	blood
21	chr12:29324200-29324600	Weak transcription	Primary neutrophils fromperipheralblood	blood
22	chr12:29324200-29325200	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr12:29324200-29325200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr12:29324200-29325200	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
25	chr12:29324400-29324600	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr12:29324400-29324600	ZNF genes & repeats	Colonic Mucosa	Colon
27	chr12:29324400-29324600	ZNF genes & repeats	Placenta	Placenta
28	chr12:29324400-29325000	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
29	chr12:29324400-29325000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
30	chr12:29324400-29325000	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr12:29324400-29325000	ZNF genes & repeats	Brain Germinal Matrix	brain
32	chr12:29324400-29325000	ZNF genes & repeats	Fetal Muscle Leg	muscle
33	chr12:29324400-29325000	ZNF genes & repeats	Fetal Stomach	stomach
34	chr12:29324400-29325000	Strong transcription	Rectal Mucosa Donor 29	rectum
35	chr12:29324400-29325000	ZNF genes & repeats	Dnd41	blood
36	chr12:29324400-29325000	Strong transcription	HUVEC	blood vessel
37	chr12:29324400-29325200	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
38	chr12:29324400-29325200	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr12:29324400-29325200	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr12:29324400-29325200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr12:29324400-29325200	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell
42	chr12:29324400-29325200	Strong transcription	Primary monocytes fromperipheralblood	blood
43	chr12:29324400-29325200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr12:29324400-29325200	ZNF genes & repeats	Fetal Intestine Large	intestine
45	chr12:29324400-29325200	ZNF genes & repeats	Fetal Muscle Trunk	muscle
46	chr12:29324400-29325200	ZNF genes & repeats	Lung	lung
47	chr12:29324400-29325200	Strong transcription	Rectal Mucosa Donor 31	rectum
48	chr12:29324400-29325200	Genic enhancers	Spleen	Spleen
49	chr12:29324400-29325400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr12:29324400-29325600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood

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