Variant report

Variant	rs11252299
Chromosome Location	chr10:4094089-4094090
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:3827062..3828607-chr10:4093523..4096614,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AKR1E2-5	chr10:4093909-4094349	XLOC_008358
2	lnc-AKR1E2-5	chr10:4094065-4094349	XLOC_008358
3	lnc-AKR1E2-5	chr10:4093918-4094349	XLOC_008358

Variant related genes	Relation type
ENSG00000067082	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10430774	1.00[EUR][1000 genomes]
rs11252210	1.00[EUR][1000 genomes]
rs11252215	1.00[EUR][1000 genomes]
rs11252216	1.00[EUR][1000 genomes]
rs11252233	1.00[EUR][1000 genomes]
rs11252234	1.00[EUR][1000 genomes]
rs11252246	1.00[EUR][1000 genomes]
rs11252247	1.00[EUR][1000 genomes]
rs11252248	1.00[EUR][1000 genomes]
rs11252251	1.00[EUR][1000 genomes]
rs11252254	1.00[EUR][1000 genomes]
rs11252255	1.00[EUR][1000 genomes]
rs11252256	1.00[EUR][1000 genomes]
rs11252261	1.00[EUR][1000 genomes]
rs11252262	1.00[EUR][1000 genomes]
rs11252263	1.00[EUR][1000 genomes]
rs11252266	1.00[EUR][1000 genomes]
rs11252269	1.00[EUR][1000 genomes]
rs11252272	1.00[EUR][1000 genomes]
rs11252276	1.00[EUR][1000 genomes]
rs11252278	1.00[EUR][1000 genomes]
rs11252282	1.00[EUR][1000 genomes]
rs11252289	1.00[EUR][1000 genomes]
rs11252296	1.00[EUR][1000 genomes]
rs11252298	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11252304	1.00[CHB][hapmap]
rs11252310	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11252311	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11252314	1.00[EUR][1000 genomes]
rs11252325	1.00[EUR][1000 genomes]
rs11252328	1.00[EUR][1000 genomes]
rs11252330	1.00[EUR][1000 genomes]
rs11252347	1.00[JPT][hapmap]
rs12218553	1.00[EUR][1000 genomes]
rs12219136	1.00[EUR][1000 genomes]
rs12219589	1.00[EUR][1000 genomes]
rs12220113	1.00[EUR][1000 genomes]
rs12221033	1.00[EUR][1000 genomes]
rs17131994	1.00[EUR][1000 genomes]
rs7068909	1.00[EUR][1000 genomes]
rs8181281	1.00[EUR][1000 genomes]
rs9888070	1.00[EUR][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	nsv1051297	chr10:3908706-4277678	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
2	nsv831772	chr10:4039292-4212218	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1046213	chr10:4059937-4144692	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv540460	chr10:4059937-4144692	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4092800-4094200	Enhancers	Stomach Mucosa	stomach
2	chr10:4092800-4094400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr10:4092800-4094400	Enhancers	NHDF-Ad	bronchial
4	chr10:4093000-4094200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr10:4093000-4094400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr10:4093200-4094200	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
7	chr10:4093200-4094200	Flanking Active TSS	Primary B cells from peripheral blood	blood
8	chr10:4093200-4094200	Active TSS	Brain Anterior Caudate	brain
9	chr10:4093200-4094200	Active TSS	Skeletal Muscle Male	skeletal muscle
10	chr10:4093200-4094200	Active TSS	NHLF	lung
11	chr10:4093200-4094400	Active TSS	Stomach Smooth Muscle	stomach
12	chr10:4093200-4094400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
13	chr10:4093400-4094200	Active TSS	Aorta	Aorta
14	chr10:4093400-4094200	Active TSS	Brain Hippocampus Middle	brain
15	chr10:4093400-4094200	Active TSS	Colonic Mucosa	Colon
16	chr10:4093400-4094200	Active TSS	Colon Smooth Muscle	Colon
17	chr10:4093400-4094200	Active TSS	Duodenum Smooth Muscle	Duodenum
18	chr10:4093400-4094200	Enhancers	Fetal Muscle Leg	muscle
19	chr10:4093400-4094400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
20	chr10:4093400-4094400	Enhancers	Fetal Stomach	stomach
21	chr10:4093600-4094400	Active TSS	Rectal Smooth Muscle	rectum
22	chr10:4093600-4094400	Enhancers	Right Ventricle	heart
23	chr10:4093800-4094200	Enhancers	Muscle Satellite Cultured Cells	--
24	chr10:4093800-4094200	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr10:4093800-4094200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr10:4093800-4094200	Enhancers	GM12878-XiMat	blood
27	chr10:4093800-4094200	Flanking Active TSS	Osteobl	bone
28	chr10:4093800-4094400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr10:4093800-4094600	Flanking Active TSS	Adipose Nuclei	Adipose
30	chr10:4093800-4096000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr10:4093800-4096000	Weak transcription	Fetal Kidney	kidney
32	chr10:4094000-4094200	Enhancers	Primary hematopoietic stem cells short term culture	blood
33	chr10:4094000-4094200	Flanking Active TSS	Duodenum Mucosa	Duodenum
34	chr10:4094000-4094200	Flanking Active TSS	Ovary	ovary
35	chr10:4094000-4094200	Enhancers	Psoas Muscle	Psoas
36	chr10:4094000-4094200	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
37	chr10:4094000-4094200	Flanking Active TSS	Right Atrium	heart
38	chr10:4094000-4094200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
39	chr10:4094000-4094200	Weak transcription	A549	lung
40	chr10:4094000-4094400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr10:4094000-4094400	Flanking Active TSS	Fetal Lung	lung
42	chr10:4094000-4094400	Enhancers	Placenta	Placenta
43	chr10:4094000-4094400	Enhancers	Gastric	stomach
44	chr10:4094000-4094400	Enhancers	Lung	lung
45	chr10:4094000-4094400	Enhancers	Pancreas	Pancrea
46	chr10:4094000-4094400	Enhancers	Sigmoid Colon	Sigmoid Colon
47	chr10:4094000-4094400	Enhancers	Small Intestine	intestine
48	chr10:4094000-4094600	Enhancers	Left Ventricle	heart
49	chr10:4094000-4094600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
50	chr10:4094000-4094600	Enhancers	Spleen	Spleen

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