RCPedia: Rtcs

Summary

Retrocopy Name	PpiaP35	Plot displaying the genomic locations of a retrocopy (in chr14) and its respective parental gene (in chr14). Each line represents a retrocopy.
Species	Rattus norvegicus
Coordinates	chr14:22706902-22707640 UCSC
Strand	+
Parental Sequence	NM_017101.1
Parental seq. overlap	717 bp
Parental seq. overlap (%)	96.5%
Genomic Region	Intergenic
Retrocopy Summary	PpiaP35, located on chr14:22706902-22707640, is a retrocopy of the parental gene Ppia. 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	Ppia
Full Name	peptidylprolyl isomerase A
Also known as	CYCA\|CyP-A
Coordinate	chr14:86673775-86677443
Strand	+
Gene summary	Enables cyclosporin A binding activity. Involved in negative regulation of phosphoprotein phosphatase activity. Predicted to be located in cytosol; extracellular region; and nucleus. Predicted to be part of protein-containing complex. Predicted to be active in cytoplasm and intracellular membrane-bounded organelle. Used to study epilepsy. Human ortholog(s) of this gene implicated in cholangiocarcinoma and human immunodeficiency virus infectious disease. Orthologous to human PPIA (peptidylprolyl isomerase A). [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	PPIAP65
Chimpanzee	Pan troglodytes	PPIAP14
Bonobo	Pan paniscus	PPIAP12
Gorilla	Gorilla gorilla	PPIAP13
Orangutan	Pongo abelii	PPIAP12
Gibbon	Nomascus leucogenys	PPIAP76
Green monkey	Chlorocebus sabaeus	PPIAP2
Crab-eating macaque	Macaca fascicularis	PPIAP37
Rhesus	Macaca mulatta	PPIAP34
Golden snub-nosed monkey	Rhinopithecus roxellana	PPIAP49
Dog	Canis familiaris	PPIAP11
Pale spear-nosed bat	Phyllostomus discolor	PPIAP64
Velvety free-tailed bat	Molossus molossus	PPIAP33
Sloth	Choloepus didactylus	PPIAP55
Baboon	Papio anubis	Without Homology
Marmoset	Callithrix jacchus	Without Homology
Mouse lemur	Microcebus murinus	Without Homology
Mouse	Mus musculus	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
Panda	Ailuropoda melanoleuca	Without Homology
Cat	Felis catus	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
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

This retrocopy transcript is not present in the database for expression quantification

Related Sequence

>PpiaP35
TTTGCAGACGCCGCTGTCTCTTTTCGCCGCTTGCTGCAGACATGGTCAACCCCACCGTGTTCTTCGACATCACGGCTGATGGCGAGCCCTTGGGTCGCGTCTGCTTCGAGCTGTTTGCAGACAAAGTGCCAAAGACAGCAGAAAACTTTCGTGCTCTGAGCACTGGGGAGAAAGGATTTGGCTATAAGGGTTCCTCCTTTCACAGAATTATTCCAGGATTCATGTGCCAGGGTGGTGACTTCACACGCCATAATGGCACTGGTGGCAAGTCCATCTACGGAGAGAAATTTGAGGATGAGAACTTCATCCTGAAGCATACAGGTCCTGGCATCTTGTCCATGGCAAATGCTGGACCAAACACAAATGGTTCCCAGTTTTTTATCTGCACTGCCAAGACTGAGTGGCTGGATGGCAAGCATGTGGTCTTTGGGAAGGTGAAAGAAGGCATGAGCATTGTGGAAGCCATGGAGCGTTTTGGGTCCAGGAATGGCAAGACCAGCAAGAAGATCACCATCTCCGACTGTGGACAACTCTAATTTCTTTGACTTGCGGGCATTTTACCCATCAAACCATTCCTTCTGTAGCTCAGGAGAGCACCCCCACCCCATCTGCTCGCAATACCCTGTAATCTCTGCTCTCACTGAAGTTCTTTGGGTTCCATATTTTCCTCATTCCCCTTCAAGTCTAGCAGGATTGCAAAGTTAAGTTTATGATTATG

>NM_017101.1
CTTTGCAGACGCCGCTGTCTCTTTTCGCCGCTTGCTGCAGACATGGTCAACCCCACCGTGTTCTTCGACATCACGGCTGATGGCGAGCCCTTGGGTCGCGTCTGCTTCGAGCTGTTTGCAGACAAAGTTCCAAAGACAGCAGAAAACTTTCGTGCTCTGAGCACTGGGGAGAAAGGATTTGGCTATAAGGGTTCCTCCTTTCACAGAATTATTCCAGGATTCATGTGCCAGGGTGGTGACTTCACACGCCATAATGGCACTGGTGGCAAGTCCATCTACGGAGAGAAATTTGAGGATGAGAACTTCATCCTGAAGCATACAGGTCCTGGCATCTTGTCCATGGCAAATGCTGGACCAAACACAAATGGTTCCCAGTTTTTTATCTGCACTGCCAAGACTGAGTGGCTGGATGGCAAGCATGTGGTCTTTGGGAAGGTGAAAGAAGGCATGAGCATTGTGGAAGCCATGGAGCGTTTTGGGTCCAGGAATGGCAAGACCAGCAAGAAGATCACCATCTCCGACTGTGGACAACTCTAATTTCTTTGACTTGCGGGCATTTTACCCATCAAACCATTCCTTCTGTAGCTCAGGAGAGCACCCCCACCCCATCTGCTCGCAATACCCTGTAATCTCTGCTCTCACTGAAGTTCTTTGGGTTCCATATTTTCCTCATTCCCCTTCAAGTCTAGCAGGATTGCAAAGTTAAGTTTATGATTATGAATAAAAACTAAATGAGAAGTGTT

>NM_017101.1 

CTTTGCAGACGCCGCTGTCTCTTTTCGCCGCTTGCTGCAGACATGGTCAACCCCACCGTGTTCTTCGACATCACGGCTGATGGCGAGCCCTTGGGTCGCGTCTGCTTCGAGCTGTTTGCAGACAAAGTTCCAAAGACAGCAGAAAACTTTCGTGCTCTGAGCACTGGGGAGAAAGGATTTGGCTATAAGGGTTCCTCCTTTCACAGAATTATTCCAGGATTCATGTGCCAGGGTGGTGACTTCACACGCCATAATGGCACTGGTGGCAAGTCCATCTACGGAGAGAAATTTGAGGATGAGAACTTCATCCTGAAGCATACAGGTCCTGGCATCTTGTCCATGGCAAATGCTGGACCAAACACAAATGGTTCCCAGTTTTTTATCTGCACTGCCAAGACTGAGTGGCTGGATGGCAAGCATGTGGTCTTTGGGAAGGTGAAAGAAGGCATGAGCATTGTGGAAGCCATGGAGCGTTTTGGGTCCAGGAATGGCAAGACCAGCAAGAAGATCACCATCTCCGACTGTGGACAACTCTAATTTCTTTGACTTGCGGGCATTTTACCCATCAAACCATTCCTTCTGTAGCTCAGGAGAGCACCCCCACCCCATCTGCTCGCAATACCCTGTAATCTCTGCTCTCACTGAAGTTCTTTGGGTTCCATATTTTCCTCATTCCCCTTCAAGTCTAGCAGGATTGCAAAGTTAAGTTTATGATTATGAATAAAAACTAAATGAGAAGTGTT

Publications

PMID - Link	Title
No publications available for this retrocopy