Variant report

Variant	rs13068958
Chromosome Location	chr3:105090349-105090350
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:105088832..105091045-chr3:105093820..105095533,2	MCF-7	breast:
2	chr3:105089084..105091284-chr3:105128262..105130713,2	MCF-7	breast:
3	chr3:105085142..105089200-chr3:105089308..105093087,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170017	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs13060146	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13060620	0.80[EUR][1000 genomes]
rs13064201	0.86[EUR][1000 genomes]
rs13089804	0.80[EUR][1000 genomes]
rs13095298	0.86[EUR][1000 genomes]
rs13097944	0.80[EUR][1000 genomes]
rs1438548	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16851027	0.80[EUR][1000 genomes]
rs1898656	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1920205	0.80[EUR][1000 genomes]
rs2399048	0.87[EUR][1000 genomes]
rs35401795	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66892237	0.81[ASN][1000 genomes]
rs7636841	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7652866	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13068958	OSBPL7	trans	lymphoblastoid	RTeQTL

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105084200-105090400	Active TSS	Pancreatic Islets	Pancreatic Islet
2	chr3:105088800-105090400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:105089000-105090600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr3:105089000-105091400	Enhancers	Brain Cingulate Gyrus	brain
5	chr3:105089000-105092600	Enhancers	Brain Substantia Nigra	brain
6	chr3:105089000-105107000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr3:105089200-105090800	Enhancers	Liver	Liver
8	chr3:105089200-105091000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
9	chr3:105089200-105093600	Weak transcription	Primary hematopoietic stem cells	blood
10	chr3:105089200-105094000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr3:105089200-105095200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr3:105089200-105101800	Weak transcription	NHDF-Ad	bronchial
13	chr3:105089400-105090400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr3:105089400-105090600	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr3:105089400-105090600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr3:105089400-105090600	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr3:105089400-105091600	Enhancers	Brain Anterior Caudate	brain
18	chr3:105089400-105094200	Weak transcription	Duodenum Mucosa	Duodenum
19	chr3:105089600-105091400	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr3:105089600-105095000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr3:105089800-105090600	Weak transcription	Fetal Heart	heart
22	chr3:105089800-105090600	Weak transcription	HSMM	muscle
23	chr3:105089800-105090600	Enhancers	Osteobl	bone
24	chr3:105089800-105090800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:105089800-105090800	Enhancers	NHLF	lung
26	chr3:105089800-105091000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr3:105089800-105091200	Active TSS	GM12878-XiMat	blood
28	chr3:105089800-105091600	Enhancers	Brain Inferior Temporal Lobe	brain
29	chr3:105089800-105091800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr3:105089800-105091800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr3:105089800-105092000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr3:105089800-105092800	Enhancers	Brain Hippocampus Middle	brain
33	chr3:105089800-105092800	Enhancers	HepG2	liver
34	chr3:105089800-105092800	Enhancers	NHEK	skin
35	chr3:105089800-105093200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr3:105089800-105094000	Weak transcription	Dnd41	blood
37	chr3:105089800-105095000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr3:105090000-105090400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr3:105090000-105091000	Enhancers	NH-A	brain
40	chr3:105090000-105092800	Enhancers	HMEC	breast
41	chr3:105090200-105090600	Enhancers	Placenta Amnion	Placenta Amnion
42	chr3:105090200-105091200	Weak transcription	HUVEC	blood vessel
43	chr3:105090200-105091600	Enhancers	Brain Angular Gyrus	brain
44	chr3:105090200-105096400	Weak transcription	A549	lung

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