RCPedia: Rtcs

Summary

Retrocopy Name	RPSAP18	Plot displaying the genomic locations of a retrocopy (in scaffold_m29_p_9) and its respective parental gene (in scaffold_m29_p_16). Each line represents a retrocopy.
Species	Rhinolophus ferrumequinum
Coordinates	scaffold_m29_p_9:46120327-46121075 UCSC
Strand	+
Parental Sequence	RPSA_x1
Parental seq. overlap	507 bp
Parental seq. overlap (%)	49.4%
Genomic Region	Intergenic
Retrocopy Summary	RPSAP18, located on scaffold_m29_p_9:46120327-46121075, is a retrocopy of the parental gene RPSA. 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	RPSA
Full Name	N/A
Also known as	NULL
Coordinate	scaffold_m29_p_16:13282051-13287268
Strand	-
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Gibbon	Nomascus leucogenys	RPSAP17
Golden snub-nosed monkey	Rhinopithecus roxellana	RPSAP50
Dolphin	Tursiops truncatus	RPSAP2
Horse	Equus caballus	RPSAP7
Dog	Canis familiaris	RPSAP8
Cat	Felis catus	RPSAP29
Pale spear-nosed bat	Phyllostomus discolor	RPSAP19
Velvety free-tailed bat	Molossus molossus	RPSAP41
Greater mouse-eared bat	Myotis myotis	RPSAP9
Kuhl's pipistrelle	Pipistrellus kuhlii	RPSAP8
Egyptian rousette	Rousettus aegyptiacus	RPSAP3
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
Green monkey	Chlorocebus sabaeus	Without Homology
Crab-eating macaque	Macaca fascicularis	Without Homology
Rhesus	Macaca mulatta	Without Homology
Baboon	Papio anubis	Without Homology
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
Panda	Ailuropoda melanoleuca	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

Related Sequence

>RPSAP18
CCCCAGAGAGGGGTCCAGAGGGCATTGTCCTGGGTTCCCATAATAACTTACAGGGAAACTCAATGTCCAGAGCCCTGAATGTCCTACAGATGAAGGAGGAAGATGTCCTCAAATTCCTTGCAGCAGGAACCCACTTAGGTTTCACCAACTTTGACTTCCAAATGGAACAGTACATCTACAAAGGACAAGTGATGGCATCTGGAGCACAAATCTGAAGGGTACCTGGGAGAAGCTCCTGCTGGTGGCTGTGTCAACGTTACCATTGAAAACCCGGCTGGTGTTAGTGTCATATCCTGCAGGAATACTGGCCAGCGAGCGGTGCTGAAGTTTGCTGCTGCCACTGGAGGCACTATTGCTGGATTTCACCTCCGTAACCTGCACTAACCGGATCCACGCGGCCTTCTGGGAGCCACATCATCTGGCGGTCACCGATCCCAGGACTGACCGCCAGCCTCTCACAGAGGCGTCTTATGTTAGCCTGCCTACTAGTGTGTGACACGGACTCTCCTCTGCACTATGCGGACATTGCCATCCCATGCAACAAGGGAACTCGCTCAGTGGGTCTGATACGATGGACGCGGGTCCGGGAAGTTCTGTGCGTGCGTGGTGCCATCCCTTGTGAACACCCTTGGGAGGCCATGCCTGATCTCTGTGTCTTCAGGATCCTGAAGAGATTGAAAAGAAAGAGCAGGTTGCTGCTGGAAAAGGCCATGACCAAGGAGGAATTCAGGGTGAATGGGCTGCTCCAG

>RPSA_x1
CCTTTCCGCGCTACCCAGAGAGGGATCCACACGGCTTTGTACTCGGTTCCCACGTAACTTAAAGGGAATCTTTCACAATGTCCggagcccttgatgtcctgcaaatgaaagagGAGGATGTCCTCAAATTCCTTGCAGCAGGAACCCATTTAGGTGGCACCAACCTTGACTTCCAGATGGAACAGTACATCTACAAACGGAAAAGTGATGGCATCTACATCATAAATCTGAAGAGAACCTGGGACCTTCACTAACCAGATCCAGGCAGCCTTCCGGGAGCCGAGACTCCTGGTGGTGACCGATCCCCGGGCTGACCACCAACCTCTCACAGAGGCATCCTACGTTAACCTGCCGACCATCGCTCTGTGCAACACAGACTCTCCTCTGCGCTATGTGGACATTGCCATCCCTTGCAACAACAAGGGCGCTCACTCCGTGGGTCTGATGTGGTGGATGCTGGCCCGGGAAGTCCTGCGCATGCGTGGTACCATCTCCCGTGAGCACGCGTGGGAGGTCATGCCTGATCTCTACTTCTACAGAGACCCTGAGGAGATTGAAAAGGAAGAGCAGGCCGCCGCTGAGAAGGCCGTGACCAAGGAGGAGTTCCAGGGCGAATGGACCGCTCCAGCGCCCGAGTTCACTGCTGCTCAGCCTGAGGTCGCGGACTGGTCTGAAGGCGTGCAGGTGCCCGCCGTCCCCATTCAGCAGTTTCCTACTGAAGACTGGAGTGCCCAGCCTGCCACTGAAGACTGGTCTGCAGCCCCCACTGCTCAGGCCACTGAATGGGTGGGAACGACCACTGAGTGGTCCTGAGCTGTTCTTCCACAAACTCTTACGCAAAATGGAAATAAGGTTGATGGAAAATAAACAGTTTCT

>RPSA_x1 

CCTTTCCGCGCTACCCAGAGAGGGATCCACACGGCTTTGTACTCGGTTCCCACGTAACTTAAAGGGAATCTTTCACAATGTCCggagcccttgatgtcctgcaaatgaaagagGAGGATGTCCTCAAATTCCTTGCAGCAGGAACCCATTTAGGTGGCACCAACCTTGACTTCCAGATGGAACAGTACATCTACAAACGGAAAAGTGATGGCATCTACATCATAAATCTGAAGAGAACCTGGGACCTTCACTAACCAGATCCAGGCAGCCTTCCGGGAGCCGAGACTCCTGGTGGTGACCGATCCCCGGGCTGACCACCAACCTCTCACAGAGGCATCCTACGTTAACCTGCCGACCATCGCTCTGTGCAACACAGACTCTCCTCTGCGCTATGTGGACATTGCCATCCCTTGCAACAACAAGGGCGCTCACTCCGTGGGTCTGATGTGGTGGATGCTGGCCCGGGAAGTCCTGCGCATGCGTGGTACCATCTCCCGTGAGCACGCGTGGGAGGTCATGCCTGATCTCTACTTCTACAGAGACCCTGAGGAGATTGAAAAGGAAGAGCAGGCCGCCGCTGAGAAGGCCGTGACCAAGGAGGAGTTCCAGGGCGAATGGACCGCTCCAGCGCCCGAGTTCACTGCTGCTCAGCCTGAGGTCGCGGACTGGTCTGAAGGCGTGCAGGTGCCCGCCGTCCCCATTCAGCAGTTTCCTACTGAAGACTGGAGTGCCCAGCCTGCCACTGAAGACTGGTCTGCAGCCCCCACTGCTCAGGCCACTGAATGGGTGGGAACGACCACTGAGTGGTCCTGAGCTGTTCTTCCACAAACTCTTACGCAAAATGGAAATAAGGTTGATGGAAAATAAACAGTTTCT

Publications

PMID - Link	Title
No publications available for this retrocopy