Variant report

Variant	rs11252298
Chromosome Location	chr10:4093832-4093833
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZNF384	chr10:4093751-4094042	K562	blood:	n/a	n/a
2	MYC	chr10:4093807-4094427	K562	blood:	n/a	n/a
3	ZNF384	chr10:4093825-4094003	GM12878	blood:	n/a	n/a
4	FOXA1	chr10:4093466-4093850	T-47D	breast:	n/a	n/a

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

Variant related genes	Relation type
ENSG00000236990	TF binding region
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]
rs11252299	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:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4092400-4094000	Weak transcription	Left Ventricle	heart
2	chr10:4092800-4094200	Enhancers	Stomach Mucosa	stomach
3	chr10:4092800-4094400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr10:4092800-4094400	Enhancers	NHDF-Ad	bronchial
5	chr10:4093000-4094000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr10:4093000-4094000	Active TSS	Right Atrium	heart
7	chr10:4093000-4094000	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr10:4093000-4094000	Enhancers	HUVEC	blood vessel
9	chr10:4093000-4094200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr10:4093000-4094400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr10:4093200-4094000	Active TSS	Duodenum Mucosa	Duodenum
12	chr10:4093200-4094000	Active TSS	Ovary	ovary
13	chr10:4093200-4094000	Active TSS	Rectal Mucosa Donor 29	rectum
14	chr10:4093200-4094200	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
15	chr10:4093200-4094200	Flanking Active TSS	Primary B cells from peripheral blood	blood
16	chr10:4093200-4094200	Active TSS	Brain Anterior Caudate	brain
17	chr10:4093200-4094200	Active TSS	Skeletal Muscle Male	skeletal muscle
18	chr10:4093200-4094200	Active TSS	NHLF	lung
19	chr10:4093200-4094400	Active TSS	Stomach Smooth Muscle	stomach
20	chr10:4093200-4094400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
21	chr10:4093400-4094000	Active TSS	Fetal Lung	lung
22	chr10:4093400-4094000	Active TSS	Placenta	Placenta
23	chr10:4093400-4094000	Active TSS	Rectal Mucosa Donor 31	rectum
24	chr10:4093400-4094000	Active TSS	Skeletal Muscle Female	skeletal muscle
25	chr10:4093400-4094000	Weak transcription	Small Intestine	intestine
26	chr10:4093400-4094200	Active TSS	Aorta	Aorta
27	chr10:4093400-4094200	Active TSS	Brain Hippocampus Middle	brain
28	chr10:4093400-4094200	Active TSS	Colonic Mucosa	Colon
29	chr10:4093400-4094200	Active TSS	Colon Smooth Muscle	Colon
30	chr10:4093400-4094200	Active TSS	Duodenum Smooth Muscle	Duodenum
31	chr10:4093400-4094200	Enhancers	Fetal Muscle Leg	muscle
32	chr10:4093400-4094400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
33	chr10:4093400-4094400	Enhancers	Fetal Stomach	stomach
34	chr10:4093600-4094000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr10:4093600-4094000	Active TSS	NH-A	brain
36	chr10:4093600-4094000	Active TSS	NHEK	skin
37	chr10:4093600-4094400	Active TSS	Rectal Smooth Muscle	rectum
38	chr10:4093600-4094400	Enhancers	Right Ventricle	heart
39	chr10:4093800-4094000	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr10:4093800-4094000	Enhancers	A549	lung
41	chr10:4093800-4094200	Enhancers	Muscle Satellite Cultured Cells	--
42	chr10:4093800-4094200	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr10:4093800-4094200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr10:4093800-4094200	Enhancers	GM12878-XiMat	blood
45	chr10:4093800-4094200	Flanking Active TSS	Osteobl	bone
46	chr10:4093800-4094400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
47	chr10:4093800-4094600	Flanking Active TSS	Adipose Nuclei	Adipose
48	chr10:4093800-4096000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr10:4093800-4096000	Weak transcription	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links