Variant report

Variant	rs17489587
Chromosome Location	chr7:79094096-79094097
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MAGI2-1	chr7:79093975-79096779	ENSG00000249657
2	lnc-GNAI1-2	chr7:79088852-79096786	ENSG00000234456.3

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs73156099	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv464598	chr7:78492642-79483480	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv607659	chr7:78492642-79483480	Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	esv2764028	chr7:78874740-79112630	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv888515	chr7:78987060-79221707	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv427792	chr7:79039802-79253373	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv970902	chr7:79046674-79175610	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv888516	chr7:79086317-79221707	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17489587	PRPSAP1	trans	lymphoblastoid	RTeQTL

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:79084400-79095000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr7:79084400-79102200	Weak transcription	Left Ventricle	heart
3	chr7:79084600-79101000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr7:79084800-79100800	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr7:79084800-79102800	Weak transcription	HSMM	muscle
6	chr7:79085000-79098600	Weak transcription	Fetal Muscle Leg	muscle
7	chr7:79085000-79099600	Weak transcription	Fetal Stomach	stomach
8	chr7:79085800-79095400	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr7:79085800-79098000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr7:79086000-79099800	Weak transcription	Stomach Smooth Muscle	stomach
11	chr7:79086600-79099600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr7:79086600-79100600	Weak transcription	Brain Anterior Caudate	brain
13	chr7:79086600-79101000	Weak transcription	Brain Angular Gyrus	brain
14	chr7:79086600-79101400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr7:79086600-79104200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr7:79087600-79099800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr7:79087800-79099800	Weak transcription	Fetal Lung	lung
18	chr7:79088000-79109600	Weak transcription	Aorta	Aorta
19	chr7:79089000-79098800	Weak transcription	Fetal Muscle Trunk	muscle
20	chr7:79089000-79102800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr7:79089200-79098000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr7:79089200-79100200	Weak transcription	Adipose Nuclei	Adipose
23	chr7:79089200-79109600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr7:79089400-79101800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr7:79089600-79095000	Weak transcription	NH-A	brain
26	chr7:79089800-79099000	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr7:79089800-79101800	Weak transcription	Liver	Liver
28	chr7:79090000-79101000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr7:79090200-79094200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr7:79090200-79098600	Weak transcription	NHDF-Ad	bronchial
31	chr7:79091800-79094400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr7:79091800-79101200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr7:79092000-79101800	Weak transcription	HUVEC	blood vessel
34	chr7:79092000-79103000	Weak transcription	Muscle Satellite Cultured Cells	--
35	chr7:79092200-79097800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr7:79092200-79097800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr7:79092200-79102200	Weak transcription	Ovary	ovary
38	chr7:79092800-79094200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr7:79093000-79094600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr7:79093600-79094200	Weak transcription	Fetal Brain Male	brain
41	chr7:79093600-79094200	Strong transcription	Osteobl	bone
42	chr7:79093800-79094200	Enhancers	Brain Substantia Nigra	brain
43	chr7:79093800-79094800	Strong transcription	NHLF	lung
44	chr7:79093800-79098000	Weak transcription	Brain Hippocampus Middle	brain
45	chr7:79094000-79094200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr7:79094000-79095200	Enhancers	Pancreatic Islets	Pancreatic Islet

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