RCPedia: Rtcs

Summary

Retrocopy Name	PTP4A2P4	Plot displaying the genomic locations of a retrocopy (in chr6) and its respective parental gene (in chr2). Each line represents a retrocopy.
Species	Choloepus didactylus
Coordinates	chr6:101860775-101861043 UCSC
Strand	+
Parental Sequence	XM_037827880.1
Parental seq. overlap	216 bp
Parental seq. overlap (%)	12.7%
Genomic Region	Intergenic
Retrocopy Summary	PTP4A2P4, located on chr6:101860775-101861043, is a retrocopy of the parental gene PTP4A2. 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	PTP4A2
Full Name	N/A
Also known as	PTP4A2
Coordinate	chr2:217980003-218003106
Strand	+
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Baboon	Papio anubis	PTP4A1P5
Golden snub-nosed monkey	Rhinopithecus roxellana	PTP4A1P6
Mouse lemur	Microcebus murinus	PTP4A1P2
Rabbit	Oryctolagus cuniculus	PTP4A1P1
Pig	Sus scrofa	PTP4A1P1
Cow	Bos taurus	PTP4A1P4
Sheep	Ovis aries	PTP4A1P4
Dolphin	Tursiops truncatus	PTP4A1P4
Horse	Equus caballus	PTP4A1P3
Dog	Canis familiaris	PTP4A1P3
Panda	Ailuropoda melanoleuca	PTP4A1P3
Pale spear-nosed bat	Phyllostomus discolor	PTP4A1P8
Egyptian rousette	Rousettus aegyptiacus	PTP4A1P2
Human	Homo sapiens	Without Homology
Chimpanzee	Pan troglodytes	Without Homology
Bonobo	Pan paniscus	Without Homology
Gorilla	Gorilla gorilla	Without Homology
Orangutan	Pongo abelii	Without Homology
Gibbon	Nomascus leucogenys	Without Homology
Green monkey	Chlorocebus sabaeus	Without Homology
Crab-eating macaque	Macaca fascicularis	Without Homology
Rhesus	Macaca mulatta	Without Homology
Marmoset	Callithrix jacchus	Without Homology
Mouse	Mus musculus	Without Homology
Rat	Rattus norvegicus	Without Homology
Chinese hamster	Cricetulus griseus	Without Homology
Cat	Felis catus	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
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

Related Sequence

>PTP4A2P4
AGAGTATGTGAAGCGACATATGATACTGCTCTTGTGGAAAAAGAAGGCATCCAGGTTCTGGACTGGCCATTTGATGATGGTTCACCACCGTCCAAACAGATTGTTGATGATTGGTTAAGTCTTGTAAACGTTAAATTTCGTGAAGAACCTGGTTGTTGTATTGCCGTTCACTGTGTTGCAGGTTTGGGGAGAACTCCAGTGCTTGTTGCCTTAGCATTAATTGAAGGtggaatgaaaaatgaagatgCAGTAGAATTTATACGACAAAA

>XM_037827880.1
GCGGGCCGGCGGGTGCGCGCGCCGCGCCCCGCAGCGCCCCCTGAGGGGCGGCGGCGGGAGCTGGTTCCGGCTGCGCGCGCAGCGGTGGTGGCGACGGCGCAATCGGTCGGGCTGTAACCGTCGTCTGCCGGTAGCGGCTGTAGCGGCAGCGGCGGCCAGGCACGGCACAAGGCGACGCCACAGGACAGCGGCGGCAGCGGGGGCAGCGGCGGTAGCAGGAGACGCAGAGGCGGCCGCAGCAGCAGCACCAAGACGGACTCGTGGAcacgcgccgccgccgccgccgggccGGGCCGGGTGTCGCGCGCCGAGGCTGGGGGGGAGTCGTCGCCGCCACCActaccgccgccgccgccgccgccgaggTGACTGAGGAGAGAGGCTCCTCCTCGCTCCCGCCGCCGCCGGACTTCAATGCCCAGTCCCCAGCTTGCCAGCGTTTTTCGTTGGAATATACGCTGCACATTTATGGCGATTCTGAGCGTGAGGGCAGAGTTCTGCCAGGCTCAGCACAGCATTTTCGCTGACAAGTGAGCTTGGAGGTTCTATGTGCCATAATTAACATTGCCTTTGAAGACTCTGGACACCGAGACTGGCCTCAGAAatagttggctttttttttttttttaattgcaagcatatttcttttaatgaCTCCAGTAAAATTAAACGTCAAGTAAACAAAAGTGGAAAGCGATCTGCACTTTTAACTTGACTCACTAGTGCCTAAATGTAGTAAAGGCTGCTTACGTTTTGTATGTAGTTGGATCTTTTTGGAGTCTGAAGGTATCCATCTACAGTCATTGAGGCCTGAGTTGAATTTGGATTCGAGTGGATTCTAAATCTTTCTACGTATCTTGAAGAGAGAAGCTTCTTAAGGAATAAACAAGTTGAATAGAGAAAACACTGATTGATAATAGGCATTTTAGTggtctttttaatgttttctgctGTGAAACATTTCAAGATTTATTGATTttccctgcccctctgcccccttttcccctcACGCTCACACAAGCACGCACACACTTTTTATTTGCCATAATGAACCGCCCAGCACCTGTGGAGATCTCCTATGAGAACATGCGTTTTCTGATAACTCACAACCCTACCAATGCTACCCTCAACAAGTTCACAGAGGAACTTAAGAAGTATGGAGTAACAACTTTGGTTCGAGTTTGTGATGCTACATATGATAAAGCTCCAGTTGAAAAAGAAGGAATCCATGTTCTTgatTGGCCATTTGATGATGGAGCTCCACCTCCTAATCAGATAGTAGATGATTGGCTAAACCTATTAAAAACTAAATTTCGTGAAGAGCCAGGTTGCTGTGTGGCTGTGCATTGTGTTGCAGGATTGGGAAGAGCACCTGTGCTGGTTGCACTTGCTTTGATCGAATGTGGAATGAAGTATGAAGATGCAGTTCAGTTTATAAGACAAAAAAGAAGGGGAGCATTCAATTCCAAACAGCTGCTTTACCTGGAGAAATACCGACCTAAGATGCGATTACGCTTTAGAGATACCAATGGGCATTGCTGTGTTCAGTAGAAAGTAATGTAAACGAAGGCTGACTCGATTGTGACGTTTAGAGGGAACTCTTGGTACCTGGAAATGTGAATCTGGAACCGTAACTGTGTCATCAGAGTAGTGATGGATTCGGTACTCCTCAACCACTCTCCTCATGAttggaaaaagcaaaca

>XM_037827880.1 

GCGGGCCGGCGGGTGCGCGCGCCGCGCCCCGCAGCGCCCCCTGAGGGGCGGCGGCGGGAGCTGGTTCCGGCTGCGCGCGCAGCGGTGGTGGCGACGGCGCAATCGGTCGGGCTGTAACCGTCGTCTGCCGGTAGCGGCTGTAGCGGCAGCGGCGGCCAGGCACGGCACAAGGCGACGCCACAGGACAGCGGCGGCAGCGGGGGCAGCGGCGGTAGCAGGAGACGCAGAGGCGGCCGCAGCAGCAGCACCAAGACGGACTCGTGGAcacgcgccgccgccgccgccgggccGGGCCGGGTGTCGCGCGCCGAGGCTGGGGGGGAGTCGTCGCCGCCACCActaccgccgccgccgccgccgccgaggTGACTGAGGAGAGAGGCTCCTCCTCGCTCCCGCCGCCGCCGGACTTCAATGCCCAGTCCCCAGCTTGCCAGCGTTTTTCGTTGGAATATACGCTGCACATTTATGGCGATTCTGAGCGTGAGGGCAGAGTTCTGCCAGGCTCAGCACAGCATTTTCGCTGACAAGTGAGCTTGGAGGTTCTATGTGCCATAATTAACATTGCCTTTGAAGACTCTGGACACCGAGACTGGCCTCAGAAatagttggctttttttttttttttaattgcaagcatatttcttttaatgaCTCCAGTAAAATTAAACGTCAAGTAAACAAAAGTGGAAAGCGATCTGCACTTTTAACTTGACTCACTAGTGCCTAAATGTAGTAAAGGCTGCTTACGTTTTGTATGTAGTTGGATCTTTTTGGAGTCTGAAGGTATCCATCTACAGTCATTGAGGCCTGAGTTGAATTTGGATTCGAGTGGATTCTAAATCTTTCTACGTATCTTGAAGAGAGAAGCTTCTTAAGGAATAAACAAGTTGAATAGAGAAAACACTGATTGATAATAGGCATTTTAGTggtctttttaatgttttctgctGTGAAACATTTCAAGATTTATTGATTttccctgcccctctgcccccttttcccctcACGCTCACACAAGCACGCACACACTTTTTATTTGCCATAATGAACCGCCCAGCACCTGTGGAGATCTCCTATGAGAACATGCGTTTTCTGATAACTCACAACCCTACCAATGCTACCCTCAACAAGTTCACAGAGGAACTTAAGAAGTATGGAGTAACAACTTTGGTTCGAGTTTGTGATGCTACATATGATAAAGCTCCAGTTGAAAAAGAAGGAATCCATGTTCTTgatTGGCCATTTGATGATGGAGCTCCACCTCCTAATCAGATAGTAGATGATTGGCTAAACCTATTAAAAACTAAATTTCGTGAAGAGCCAGGTTGCTGTGTGGCTGTGCATTGTGTTGCAGGATTGGGAAGAGCACCTGTGCTGGTTGCACTTGCTTTGATCGAATGTGGAATGAAGTATGAAGATGCAGTTCAGTTTATAAGACAAAAAAGAAGGGGAGCATTCAATTCCAAACAGCTGCTTTACCTGGAGAAATACCGACCTAAGATGCGATTACGCTTTAGAGATACCAATGGGCATTGCTGTGTTCAGTAGAAAGTAATGTAAACGAAGGCTGACTCGATTGTGACGTTTAGAGGGAACTCTTGGTACCTGGAAATGTGAATCTGGAACCGTAACTGTGTCATCAGAGTAGTGATGGATTCGGTACTCCTCAACCACTCTCCTCATGAttggaaaaagcaaaca

Publications

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