Variant report

Variant	rs55652806
Chromosome Location	chr7:79088583-79088584
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MAGI2-1	chr7:79088353-79093892	ENSG00000249657

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs17152530	1.00[EUR][1000 genomes]
rs17152533	1.00[EUR][1000 genomes]
rs17424004	0.98[EUR][1000 genomes]
rs17424273	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2365420	0.96[EUR][1000 genomes]
rs56252871	0.96[EUR][1000 genomes]
rs56390376	1.00[EUR][1000 genomes]
rs73704836	0.96[EUR][1000 genomes]
rs73704837	0.98[EUR][1000 genomes]
rs73704838	0.98[EUR][1000 genomes]
rs73704840	0.98[EUR][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

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:79084200-79091200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr7:79084400-79089000	Weak transcription	NH-A	brain
3	chr7:79084400-79095000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr7:79084400-79102200	Weak transcription	Left Ventricle	heart
5	chr7:79084600-79101000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr7:79084800-79091000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr7:79084800-79100800	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr7:79084800-79102800	Weak transcription	HSMM	muscle
9	chr7:79085000-79088800	Weak transcription	Fetal Brain Female	brain
10	chr7:79085000-79089000	Weak transcription	Fetal Heart	heart
11	chr7:79085000-79090400	Weak transcription	Lung	lung
12	chr7:79085000-79098600	Weak transcription	Fetal Muscle Leg	muscle
13	chr7:79085000-79099600	Weak transcription	Fetal Stomach	stomach
14	chr7:79085200-79089000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr7:79085200-79091800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr7:79085800-79089000	Weak transcription	Liver	Liver
17	chr7:79085800-79089800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr7:79085800-79090800	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr7:79085800-79095400	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr7:79085800-79098000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr7:79086000-79089400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr7:79086000-79099800	Weak transcription	Stomach Smooth Muscle	stomach
23	chr7:79086200-79090400	Weak transcription	Fetal Kidney	kidney
24	chr7:79086200-79093800	Weak transcription	Brain Substantia Nigra	brain
25	chr7:79086400-79090600	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr7:79086600-79088800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr7:79086600-79099600	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr7:79086600-79100600	Weak transcription	Brain Anterior Caudate	brain
29	chr7:79086600-79101000	Weak transcription	Brain Angular Gyrus	brain
30	chr7:79086600-79101400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr7:79086600-79104200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr7:79087000-79090000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr7:79087400-79088600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr7:79087400-79088800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr7:79087400-79089000	Strong transcription	Fetal Muscle Trunk	muscle
36	chr7:79087400-79089200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr7:79087600-79088800	Enhancers	Colon Smooth Muscle	Colon
38	chr7:79087600-79089400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr7:79087600-79099800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr7:79087800-79088600	Weak transcription	HepG2	liver
41	chr7:79087800-79088800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr7:79087800-79089000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr7:79087800-79090400	Strong transcription	HUVEC	blood vessel
44	chr7:79087800-79093400	Weak transcription	Brain Hippocampus Middle	brain
45	chr7:79087800-79099800	Weak transcription	Fetal Lung	lung
46	chr7:79088000-79088800	Weak transcription	NHLF	lung
47	chr7:79088000-79089000	Enhancers	Osteobl	bone
48	chr7:79088000-79091800	Weak transcription	Ovary	ovary
49	chr7:79088000-79109600	Weak transcription	Aorta	Aorta
50	chr7:79088200-79088600	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links