Variant report

Variant	rs7069940
Chromosome Location	chr10:95516084-95516085
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10882327	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2095889	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2095890	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2095891	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3758534	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7069934	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7894449	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7913442	0.85[EUR][1000 genomes];0.98[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	esv3346948	chr10:95421957-95532625	Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7069940	C10orf4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95505800-95517600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:95510200-95517600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr10:95511000-95516800	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr10:95511000-95517600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr10:95511600-95517600	Enhancers	Fetal Stomach	stomach
6	chr10:95512000-95516200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr10:95512000-95516600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr10:95512000-95516600	Weak transcription	Brain Hippocampus Middle	brain
9	chr10:95512000-95516800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr10:95512000-95516800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr10:95512000-95517000	Weak transcription	Fetal Brain Male	brain
12	chr10:95512000-95517200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr10:95512000-95517600	Weak transcription	Lung	lung
14	chr10:95512000-95517600	Weak transcription	Psoas Muscle	Psoas
15	chr10:95512000-95517800	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr10:95512000-95522200	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr10:95512200-95516600	Weak transcription	Brain Substantia Nigra	brain
18	chr10:95512200-95516600	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr10:95512200-95517000	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr10:95512200-95517600	Weak transcription	Liver	Liver
21	chr10:95512200-95517600	Enhancers	Colon Smooth Muscle	Colon
22	chr10:95512600-95516800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr10:95512600-95517000	Weak transcription	Fetal Brain Female	brain
24	chr10:95512600-95522800	Weak transcription	Gastric	stomach
25	chr10:95512800-95517600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr10:95513000-95517200	Weak transcription	NH-A	brain
27	chr10:95513200-95516200	Enhancers	Brain Cingulate Gyrus	brain
28	chr10:95513600-95517200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr10:95513800-95516800	Weak transcription	Stomach Smooth Muscle	stomach
30	chr10:95514000-95516800	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr10:95514200-95516600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr10:95514600-95517000	Enhancers	HUES64 Cell Line	embryonic stem cell
33	chr10:95515000-95516200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr10:95515000-95517600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr10:95515600-95516200	Enhancers	Fetal Lung	lung
36	chr10:95515600-95516600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr10:95515600-95517000	Weak transcription	Rectal Mucosa Donor 29	rectum
38	chr10:95515600-95517800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr10:95515800-95516200	Bivalent Enhancer	Fetal Kidney	kidney
40	chr10:95516000-95516200	Flanking Active TSS	Brain Angular Gyrus	brain
41	chr10:95516000-95516200	Enhancers	Brain Anterior Caudate	brain
42	chr10:95516000-95516200	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
43	chr10:95516000-95516400	Flanking Active TSS	Rectal Smooth Muscle	rectum
44	chr10:95516000-95517200	Enhancers	Skeletal Muscle Female	skeletal muscle
45	chr10:95516000-95517800	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
46	chr10:95516000-95518000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr10:95516000-95518000	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
48	chr10:95516000-95521200	Active TSS	Brain Inferior Temporal Lobe	brain

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