Variant report

Variant	rs2478091
Chromosome Location	chr10:25239115-25239116
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:25010748..25013945-chr10:25238648..25242767,8	MCF-7	breast:
2	chr10:25009082..25014020-chr10:25238727..25242865,5	K562	blood:

Variant related genes	Relation type
ENSG00000107863	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10741071	0.85[ASN][1000 genomes]
rs10741072	0.92[ASN][1000 genomes]
rs10764513	0.86[ASN][1000 genomes]
rs10828728	0.87[ASN][1000 genomes]
rs10828730	0.84[ASN][1000 genomes]
rs10828731	0.90[ASN][1000 genomes]
rs11014318	0.94[ASN][1000 genomes]
rs11014320	0.97[ASN][1000 genomes]
rs185669	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs200730	0.80[ASN][1000 genomes]
rs2031600	0.80[ASN][1000 genomes]
rs2035888	0.96[ASN][1000 genomes]
rs274288	0.82[ASN][1000 genomes]
rs274289	0.82[ASN][1000 genomes]
rs274295	0.81[ASN][1000 genomes]
rs274296	0.81[ASN][1000 genomes]
rs274297	0.82[ASN][1000 genomes]
rs274299	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs274301	0.87[ASN][1000 genomes]
rs274303	0.82[ASN][1000 genomes]
rs274304	0.82[ASN][1000 genomes]
rs274305	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs274306	0.82[ASN][1000 genomes]
rs274307	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs274308	0.82[ASN][1000 genomes]
rs274309	0.82[ASN][1000 genomes]
rs274310	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs274311	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs274312	0.82[ASN][1000 genomes]
rs274313	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs274316	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3000491	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3748223	0.92[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	nsv1053278	chr10:25140776-25269093	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25191600-25240600	Weak transcription	Stomach Smooth Muscle	stomach
2	chr10:25211400-25239800	Weak transcription	Fetal Kidney	kidney
3	chr10:25215800-25240000	Weak transcription	Fetal Muscle Trunk	muscle
4	chr10:25219200-25240000	Weak transcription	Dnd41	blood
5	chr10:25225400-25240000	Weak transcription	Duodenum Mucosa	Duodenum
6	chr10:25225400-25240000	Weak transcription	Fetal Brain Female	brain
7	chr10:25226200-25239800	Weak transcription	Fetal Lung	lung
8	chr10:25226400-25239200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:25228200-25239800	Weak transcription	Fetal Stomach	stomach
10	chr10:25232600-25239800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:25232800-25240000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr10:25234200-25240400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr10:25234200-25240400	Weak transcription	Colon Smooth Muscle	Colon
14	chr10:25234200-25240600	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr10:25234200-25240600	Weak transcription	Right Atrium	heart
16	chr10:25234400-25239800	Weak transcription	A549	lung
17	chr10:25234400-25239800	Weak transcription	HepG2	liver
18	chr10:25234400-25239800	Weak transcription	K562	blood
19	chr10:25234400-25240600	Weak transcription	Adipose Nuclei	Adipose
20	chr10:25234600-25239800	Weak transcription	Fetal Intestine Small	intestine
21	chr10:25235400-25240400	Enhancers	Brain Substantia Nigra	brain
22	chr10:25236200-25241000	Weak transcription	Thymus	Thymus
23	chr10:25236600-25240200	Weak transcription	NHLF	lung
24	chr10:25236800-25239400	Enhancers	Brain Hippocampus Middle	brain
25	chr10:25236800-25239800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr10:25236800-25240000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr10:25236800-25240600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr10:25236800-25240600	Weak transcription	Left Ventricle	heart
29	chr10:25237000-25239800	Weak transcription	Fetal Muscle Leg	muscle
30	chr10:25237000-25240000	Weak transcription	Small Intestine	intestine
31	chr10:25237000-25240200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr10:25237000-25240400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr10:25237000-25240400	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr10:25237000-25240400	Weak transcription	Pancreas	Pancrea
35	chr10:25237000-25240400	Weak transcription	Osteobl	bone
36	chr10:25237000-25240600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr10:25237000-25240600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr10:25237000-25240600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr10:25237000-25240600	Weak transcription	NH-A	brain
40	chr10:25237000-25240800	Weak transcription	Primary T helper cells PMA-I stimulated	--
41	chr10:25237000-25241000	Weak transcription	Ovary	ovary
42	chr10:25237200-25240000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr10:25237200-25240000	Weak transcription	NHDF-Ad	bronchial
44	chr10:25237200-25240400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr10:25237200-25240400	Weak transcription	GM12878-XiMat	blood
46	chr10:25237200-25240600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr10:25237200-25240600	Weak transcription	HUVEC	blood vessel
48	chr10:25237200-25240800	Weak transcription	HMEC	breast
49	chr10:25237400-25240600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr10:25237400-25240800	Weak transcription	NHEK	skin

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