RCPedia: Rtcs

Summary

Retrocopy Name	METAP2P1	Plot displaying the genomic locations of a retrocopy (in chr2) and its respective parental gene (in chr12). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr2:145825535-145827836 UCSC
Coordinates (T2T)	chr2:146273968-146276269 UCSC
Coordinates (hg19)	chr2:146583103-146585404 UCSC
Strand	-
Parental Sequence	NM_006838.4
Parental seq. overlap	1413 bp
Parental seq. overlap (%)	39.7%
Genomic Region	Intergenic
Retrocopy Summary	METAP2P1, located on chr2:145825535-145827836, is a retrocopy of the parental gene METAP2. Retrocopies of protein-coding genes, also known as processed pseudogenes, are intriguing genomic elements with implications in genome evolution and diseases. While some retrocopies are non-functional, there are examples of retrocopies (retrogenes) acquiring regulatory roles or exhibiting neofunctionalization unrelated to their parental genes.

Parental Gene

Gene Name	METAP2
Full Name	methionyl aminopeptidase 2
Also known as	MAP2\|MNPEP\|p67eIF2
Coordinate	chr12:95474152-95515839
Strand	+
Gene summary	The protein encoded by this gene is a member of the methionyl aminopeptidase family. The encoded protein functions both by protecting the alpha subunit of eukaryotic initiation factor 2 from inhibitory phosphorylation and by removing the amino-terminal methionine residue from nascent proteins. Increased expression of this gene is associated with various forms of cancer, and the anti-cancer drugs fumagillin and ovalicin inhibit the protein by irreversibly binding to its active site. Inhibitors of this gene have also been shown to be effective for the treatment of obesity. A pseudogene of this gene is located on chromosome 2. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Nov 2015]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	METAP2P1
Bonobo	Pan paniscus	METAP2P1
Gorilla	Gorilla gorilla	METAP2P1
Orangutan	Pongo abelii	METAP2P1
Gibbon	Nomascus leucogenys	METAP2P1
Green monkey	Chlorocebus sabaeus	METAP2P1
Crab-eating macaque	Macaca fascicularis	METAP2P1
Rhesus	Macaca mulatta	METAP2P1
Baboon	Papio anubis	METAP2P1
Golden snub-nosed monkey	Rhinopithecus roxellana	METAP2P1
Marmoset	Callithrix jacchus	Without Homology
Mouse lemur	Microcebus murinus	Without Homology
Mouse	Mus musculus	Without Homology
Rat	Rattus norvegicus	Without Homology
Chinese hamster	Cricetulus griseus	Without Homology
Rabbit	Oryctolagus cuniculus	Without Homology
Pig	Sus scrofa	Without Homology
Cow	Bos taurus	Without Homology
Sheep	Ovis aries	Without Homology
Dolphin	Tursiops truncatus	Without Homology
Horse	Equus caballus	Without Homology
Dog	Canis familiaris	Without Homology
Panda	Ailuropoda melanoleuca	Without Homology
Cat	Felis catus	Without Homology
Pale spear-nosed bat	Phyllostomus discolor	Without Homology
Velvety free-tailed bat	Molossus molossus	Without Homology
Greater mouse-eared bat	Myotis myotis	Without Homology
Kuhl's pipistrelle	Pipistrellus kuhlii	Without Homology
Greater horseshoe bat	Rhinolophus ferrumequinum	Without Homology
Egyptian rousette	Rousettus aegyptiacus	Without Homology
Sloth	Choloepus didactylus	Without Homology
Tasmanian Devil	Sarcophilus harrisii	Without Homology
Opossum	Monodelphis domestica	Without Homology
Platypus	Ornithorhynchus anatinus	Without Homology
Chicken	Gallus gallus	Without Homology
Turkey	Meleagris gallopavo	Without Homology
Zebra Finch	Taeniopygia guttata	Without Homology
Budgerigar	Melopsittacus undulatus	Without Homology
Painted Turtle	Chrysemys picta	Without Homology
Lizard	Anolis Carolinensis	Without Homology
Frog	Xenopus tropicalis	Without Homology
Zebrafish	Danio rerio	Without Homology
Drosophila	Drosophila melanogaster	Without Homology

Expression

The Genotype-Tissue Expression project - (GTEx)

Massive Mining of Publicly Available RNA-seq Data from Human and Mouse - (ARCHS4)

Related Sequence

>METAP2P1
GAAGGAATTTGATCAAAGGTAAACAGTCTAACGTAATGAACCAAAGAAAAAGCTTTCAGGACTTTCAAATGTTAACTGTTTTTCCCCTTCCTATCTAGGAAAATGCTATAAAGCTCAGATTAGTTAGGAATGACTTACACCTTTTGTTTTGAAAACTAAGAGCCGGTTTCCAGATATTTATATTCCCGTATTTCTTGAATGCTTAGAATGACTACAATTCTGCATCGATACCCTCTATTGTTAATTTTTAACCTGCCTGGAATCTTTTTCCTAAAAAAAAAAAGATATTTTCAGATCTGAAACAACCAAAATTCCAACAGACCCTCCCTCCCTCAGTTCCAATATGTGGCTGTATCCTAGTCGTGTATTTCCCAAAGGACAAGAAAGTGAATACCCACACACACAAGATGGATGGAGAATTATGAGTGAAGAAAAGAAAGTGTTAGATCAGGCTAGGGAAGAGATTTGGAATGATTTTTGAGAAGCTGCAGAAGCACATTGACAAGTGAGAATATATGTAATGAGCTGGATCAAGCCTGGGATGATAGAAATCTGTGAAAAGTTGGAAAACTGTTCACACAATCTAATAAATGAAAATGGATTAAATGCATGCCTGGCATTTCCTGCTGGAAGTTCTCACAATAATTGTGCTGCCCATTATACTCCCATTGCTGGTGACACAACAGTATTACAGTAAGATAACATCTGTAAAATAGATTTTGGAATCGGTATAAGTGGTAGGAATATTGACTACTGACTGTGGTCTTACTGTCACTTTTAATCCCAATTATGATACATGATTAAAAGCTGTAAAAGATGCTGCTACTACTGGAATGAAGTGTGCTGGAATTGATGTTCATCTGTGTGATGTTGGTGAGTCCATCCAAAAATTTATGGAGTCCTATGAAGTTGAAATAGATGGGAAGACACAACAGGTGAAACCAATCCATAACCTAAATGGACATTCAATCGGGAAATATAGAATACATGCTGGAAAAACAGTGTCCATTCCGAAAGGAGGAGAAGCAACAAGAATGGAGGAAAGGAAGTGTATGCAATTGAAACCATTGATAGTACAGGAAAAGATATGATGATATGGGATGTTCATATTACATGAAAAATTTTGATGTTGGACATGTACCAGTAAGGTTTCTAAACAAAATAATTGTTAAATGTCATCAGTGAAAATTTTGGCACCCTCACCTTCTGCCACAGATGGCTGGATTGCTTGGGAGAAAGGAAATTCTTGATGGCTCTGAAGAATCTGTGACTTGGAAATTGTATCCACCATTGTGTGACAGTAAAGGATCATACACAGTGCAGTTTGAACATACCATAGTGTTGCATCCAACATGTAAAGAAGTTGTCAGCAGAGGAGATGACTATTAAACTTAGTCCAAAGCAACTTTAACACCTTTATTTTCTAAGCTTTTTTGGAATACATATCAAATTAATTTGCAACATGTTGTCTATTTTAACAGTGGACCTGTATAATATTTTTATCTGTGTTTAAAAAAGAAGAAATTTGGCAACATGGCAGGCATGGAGGAGGCAGCGACCTTTGGGAGCTACATGAATGGCAACCTGGATCCAGATGAAAGGGAGGAGGAAGCTGCCTCTACAACTGAGGAAGAAGCCAAGAAAAACAGATGGAGGAAAAAGAAGAGTAAAGGGGCTGCAGCAGGGCAGCAGGAAACTGATAAAGGATTAAGAGCCTCAGTGGATGAAGGAGCAAGACAACTGGAAAGACAAGCATTGg

>NM_006838.4
CTCATTCCCTCGCGCTCTCTCGGGCAACATGGCGGGTGTGGAGGAGGTAGCGGCCTCCGGGAGCCACCTGAATGGCGACCTGGATCCAGACGACAGGGAAGAAGGAGCTGCCTCTACGGCTGAGGAAGCAGCCaagaaaaaaagacgaaagaagaagaagaGCAAAGGGCCTTCTGCAGCAGGGGAACAGGAACCTGATAAAGAATCAGGAGCCTCAGTGGATGAAGTAGCAAGACAGTTGGAAAGATCAGCATTGGAAGATAAAGAAAGAGATGAAGATGATGAAGATGGAGATGGCGATGGAGATGGAGCAACTGGAaagaagaagaaaaagaagaagaagaagaGAGGACCAAAAGTTCAAACAGACCCTCCCTCAGTTCCAATATGTGACCTGTATCCTAATGGTGTATTTCCCAAAGGACAAGAATGCGAATACCCACCCACACAAGATGGGCGAACAGCTGCTTGGAGAACTACAAGTGAAGAAAAGAAAGCATTAGATCAGGCAAGTGAAGAGATTTGGAATGATTTTCGAGAAGCTGCAGAAGCACATCGACAAGTTAGAAAATACGTAATGAGCTGGATCAAGCCTGGGATGACAATGATAGAAATCTGTGAAAAGTTGGAAGACTGTTCACGCAAGTTAATAAAAGAGAATGGATTAAATGCAGGCCTGGCATTTCCTACTGGATGTTCTCTCAATAATTGTGCTGCCCATTATACTCCCAATGCCGGTGACACAACAGTATTACAGTATGATGACATCTGTAAAATAGACTTTGGAACACATATAAGTGGTAGGATTATTGACTGTGCTTTTACTGTCACTTTTAATCCCAAATATGATACGTTATTAAAAGCTGTAAAAGATGCTACTAACACTGGAATAAAGTGTGCTGGAATTGATGTTCGTCTGTGTGATGTTGGTGAGGCCATCCAAGAAGTTATGGAGTCCTATGAAGTTGAAATAGATGGGAAGACATATCAAGTGAAACCAATCCGTAATCTAAATGGACATTCAATTGGGCAATATAGAATACATGCTGGAAAAACAGTGCCGATTGTGAAAGGAGGGGAGGCAACAAGAATGGAGGAAGGAGAAGTATATGCAATTGAAACCTTTGGTAGTACAGGAAAAGGTGTTGTTCATGATGATATGGAATGTTCACATTACATGAAAAATTTTGATGTTGGACATGTGCCAATAAGGCTTCCAAGAACAAAACACTTGTTAAATGTCATCAATGAAAACTTTGGAACCCTTGCCTTCTGCCGCAGATGGCTGGATCGCTTGGGAGAAAGTAAATACTTGATGGCTCTGAAGAATCTGTGTGACTTGGGCATTGTAGATCCATATCCACCATTATGTGACATTAAAGGATCATATACAGCGCAATTTGAACATACCATCCTGTTGCGTCCAACATGTAAAGAAGTTGTCAGCAGAGGAGATGACTATTAAACTTAGTCCAAAGCCACCTCAACACCTTTATTTTCTGAGCTTTGTTGGAAAACATGATACCAGAATTAATTTGCCACATGTTGTCTGTTTTAACAGTGGACCCATGTAATACTTTTATCCATGTTTAAAAAAGAAGGAATTTGGACAAAGGCAAACCGTCTAATGTAATTAACCAACGAAAAAGCTTTCCGGACTTTTAAATGCTAACTGTTTTTCCCCTTCCTGTCTAGGAAAATGCTATAAAGCTCAAATTAGTTAGGAATGACTTATACGTTTTGTTTTGAATACCTAAGAGATACTTTTTGGATATTTATATTGCCATATTCTTACTTGAATGCTTTGAATGACTACATCCAGTTCTGCACCTATACCCTCTGGTGTTGCTTTTTAACCTTCCTGGAATCCATTTTCTAAAAAATAAAGACATTTTCAGATCTGAGAGCTACATCTCAATGTCTGTGGTTATAATTCTGGACAGGATAAATAGCTAAACTTAATGTAGGCAAATGCAGAGACATTTATCTGAAATGTAGACCTCTACACTGAGACTTTTCTGGCATAGTGGCTAAAACAAGATCTACACATGCATAAAAAGGGACAATCACCTTTTCTTCATAAATATACAGCTTTAGGAATATTTCACCATTCTTTGTAGGACATAGTAGTCCTTGTCTTTTTTTCTCCTGACATTGGAAAGATGTGCTAATTGAAACTTGACTTAGTAGGAACATTGTGCCAACTCAAAACCTTGATTTAGTAAAAATCTCAATGTTTAGATCCTTTGTCCAGTGGTGGTGTTTATCAGGGAATGTATTCAGCTTGCTCAGAAAACCAAAAGGGTATTAAAGCCACAAAAGCAAAGAAGAAAAAAAAAAACTTCCCATGTTTGGATCTTGTTCTAGTTAGAAAAATTAAGTTGAAATTCTTGGACTTTTTCATTCATGAGGCAAATGCTGTAATACCTTCCCCTTTGACAGGTTTGGATTCTTAACATTACTAGTGGTATTTCAGGAAGTGACGTTACAGTTACTTTCCTTATAGCGGCTAAGTGTATTAAGTTGAATGTAACGATGGTAATATTAATTTGTTTGAACTGAGGCCCACTACTGATTCTTTGACAAATTGAATTCTTATATTTAAATAATTTTATGGGAATGTTCCATCATAATTTCTAAATCATTTATATATCAAGGTAGCCTTAATTTGTATATGTTTCAGTACAATGAGATTTTATTGCCTCTGGGATGCTGTTTAGTTTGTATTTTGTTGAACGTTTTTATCCTAGGAAGAGAAACCTATGACTTGTGTACCTAGATCATCTGTTACATTAAAAAGCTGCTCTTTCAGCATTAGAGCTATAAATGAATGTTACCTTGTCGGGAAACAATCTAGGTTTTAGCTGTATGAGCTATGTTTATTATGGTGCTAATGTTCAGTAGCCACATTTGACTAATGTCTCCATTCTCTGTGATGCTGTGGCTAGCAGCAGAGCTCGCCAGTTCATGCCTGGACATACTGTCAGGGCTGGGCCCTCCAGCTAGCTCCTTTGGGGTTGAGTCCGTATCTTTTTGATGTGGAAGTATAAAGCAAGTATCTTGATTTCTAAACCCAGCAATTTTAGAATTGACCTTTATGAGTGAAGACTTTTGGAGCTTTTAAAGACCTTGGCAGTCATGATCTCAAACCAATTAGGAGCTCCAAGCTCCCTTCCCAGGTAACTGTTGGGAGCAATGGCATCACTGTATGCCCTTGTAATGGCTGGAAGGGACATGATCTTGTAAGTAGGAAAGCTGTAACTAAAAATTGTATTGTTTGCTTATTAGCCATGTATCTCTTAAAATTTTGTTATGTTTACAACGATGTACCTTATTGGCAACAAGTTATTAGTTTGATGTTTAACAATAGTGCCTTTAGTAAATTATTTTACAACTAAAA

>NM_006838.4 

CTCATTCCCTCGCGCTCTCTCGGGCAACATGGCGGGTGTGGAGGAGGTAGCGGCCTCCGGGAGCCACCTGAATGGCGACCTGGATCCAGACGACAGGGAAGAAGGAGCTGCCTCTACGGCTGAGGAAGCAGCCaagaaaaaaagacgaaagaagaagaagaGCAAAGGGCCTTCTGCAGCAGGGGAACAGGAACCTGATAAAGAATCAGGAGCCTCAGTGGATGAAGTAGCAAGACAGTTGGAAAGATCAGCATTGGAAGATAAAGAAAGAGATGAAGATGATGAAGATGGAGATGGCGATGGAGATGGAGCAACTGGAaagaagaagaaaaagaagaagaagaagaGAGGACCAAAAGTTCAAACAGACCCTCCCTCAGTTCCAATATGTGACCTGTATCCTAATGGTGTATTTCCCAAAGGACAAGAATGCGAATACCCACCCACACAAGATGGGCGAACAGCTGCTTGGAGAACTACAAGTGAAGAAAAGAAAGCATTAGATCAGGCAAGTGAAGAGATTTGGAATGATTTTCGAGAAGCTGCAGAAGCACATCGACAAGTTAGAAAATACGTAATGAGCTGGATCAAGCCTGGGATGACAATGATAGAAATCTGTGAAAAGTTGGAAGACTGTTCACGCAAGTTAATAAAAGAGAATGGATTAAATGCAGGCCTGGCATTTCCTACTGGATGTTCTCTCAATAATTGTGCTGCCCATTATACTCCCAATGCCGGTGACACAACAGTATTACAGTATGATGACATCTGTAAAATAGACTTTGGAACACATATAAGTGGTAGGATTATTGACTGTGCTTTTACTGTCACTTTTAATCCCAAATATGATACGTTATTAAAAGCTGTAAAAGATGCTACTAACACTGGAATAAAGTGTGCTGGAATTGATGTTCGTCTGTGTGATGTTGGTGAGGCCATCCAAGAAGTTATGGAGTCCTATGAAGTTGAAATAGATGGGAAGACATATCAAGTGAAACCAATCCGTAATCTAAATGGACATTCAATTGGGCAATATAGAATACATGCTGGAAAAACAGTGCCGATTGTGAAAGGAGGGGAGGCAACAAGAATGGAGGAAGGAGAAGTATATGCAATTGAAACCTTTGGTAGTACAGGAAAAGGTGTTGTTCATGATGATATGGAATGTTCACATTACATGAAAAATTTTGATGTTGGACATGTGCCAATAAGGCTTCCAAGAACAAAACACTTGTTAAATGTCATCAATGAAAACTTTGGAACCCTTGCCTTCTGCCGCAGATGGCTGGATCGCTTGGGAGAAAGTAAATACTTGATGGCTCTGAAGAATCTGTGTGACTTGGGCATTGTAGATCCATATCCACCATTATGTGACATTAAAGGATCATATACAGCGCAATTTGAACATACCATCCTGTTGCGTCCAACATGTAAAGAAGTTGTCAGCAGAGGAGATGACTATTAAACTTAGTCCAAAGCCACCTCAACACCTTTATTTTCTGAGCTTTGTTGGAAAACATGATACCAGAATTAATTTGCCACATGTTGTCTGTTTTAACAGTGGACCCATGTAATACTTTTATCCATGTTTAAAAAAGAAGGAATTTGGACAAAGGCAAACCGTCTAATGTAATTAACCAACGAAAAAGCTTTCCGGACTTTTAAATGCTAACTGTTTTTCCCCTTCCTGTCTAGGAAAATGCTATAAAGCTCAAATTAGTTAGGAATGACTTATACGTTTTGTTTTGAATACCTAAGAGATACTTTTTGGATATTTATATTGCCATATTCTTACTTGAATGCTTTGAATGACTACATCCAGTTCTGCACCTATACCCTCTGGTGTTGCTTTTTAACCTTCCTGGAATCCATTTTCTAAAAAATAAAGACATTTTCAGATCTGAGAGCTACATCTCAATGTCTGTGGTTATAATTCTGGACAGGATAAATAGCTAAACTTAATGTAGGCAAATGCAGAGACATTTATCTGAAATGTAGACCTCTACACTGAGACTTTTCTGGCATAGTGGCTAAAACAAGATCTACACATGCATAAAAAGGGACAATCACCTTTTCTTCATAAATATACAGCTTTAGGAATATTTCACCATTCTTTGTAGGACATAGTAGTCCTTGTCTTTTTTTCTCCTGACATTGGAAAGATGTGCTAATTGAAACTTGACTTAGTAGGAACATTGTGCCAACTCAAAACCTTGATTTAGTAAAAATCTCAATGTTTAGATCCTTTGTCCAGTGGTGGTGTTTATCAGGGAATGTATTCAGCTTGCTCAGAAAACCAAAAGGGTATTAAAGCCACAAAAGCAAAGAAGAAAAAAAAAAACTTCCCATGTTTGGATCTTGTTCTAGTTAGAAAAATTAAGTTGAAATTCTTGGACTTTTTCATTCATGAGGCAAATGCTGTAATACCTTCCCCTTTGACAGGTTTGGATTCTTAACATTACTAGTGGTATTTCAGGAAGTGACGTTACAGTTACTTTCCTTATAGCGGCTAAGTGTATTAAGTTGAATGTAACGATGGTAATATTAATTTGTTTGAACTGAGGCCCACTACTGATTCTTTGACAAATTGAATTCTTATATTTAAATAATTTTATGGGAATGTTCCATCATAATTTCTAAATCATTTATATATCAAGGTAGCCTTAATTTGTATATGTTTCAGTACAATGAGATTTTATTGCCTCTGGGATGCTGTTTAGTTTGTATTTTGTTGAACGTTTTTATCCTAGGAAGAGAAACCTATGACTTGTGTACCTAGATCATCTGTTACATTAAAAAGCTGCTCTTTCAGCATTAGAGCTATAAATGAATGTTACCTTGTCGGGAAACAATCTAGGTTTTAGCTGTATGAGCTATGTTTATTATGGTGCTAATGTTCAGTAGCCACATTTGACTAATGTCTCCATTCTCTGTGATGCTGTGGCTAGCAGCAGAGCTCGCCAGTTCATGCCTGGACATACTGTCAGGGCTGGGCCCTCCAGCTAGCTCCTTTGGGGTTGAGTCCGTATCTTTTTGATGTGGAAGTATAAAGCAAGTATCTTGATTTCTAAACCCAGCAATTTTAGAATTGACCTTTATGAGTGAAGACTTTTGGAGCTTTTAAAGACCTTGGCAGTCATGATCTCAAACCAATTAGGAGCTCCAAGCTCCCTTCCCAGGTAACTGTTGGGAGCAATGGCATCACTGTATGCCCTTGTAATGGCTGGAAGGGACATGATCTTGTAAGTAGGAAAGCTGTAACTAAAAATTGTATTGTTTGCTTATTAGCCATGTATCTCTTAAAATTTTGTTATGTTTACAACGATGTACCTTATTGGCAACAAGTTATTAGTTTGATGTTTAACAATAGTGCCTTTAGTAAATTATTTTACAACTAAAA

Publications

PMID - Link	Title
No publications available for this retrocopy

Summary

Parental Gene

Homology

Expression

The Genotype-Tissue Expression project - (GTEx)

Massive Mining of Publicly Available RNA-seq Data from Human and Mouse - (ARCHS4)

log10(TPM+1) <=> TPM

Related Sequence

Publications