RCPedia: Rtcs

Summary

Retrocopy Name	RPSAP2	Plot displaying the genomic locations of a retrocopy (in scaffold_m29_p_1) and its respective parental gene (in scaffold_m29_p_16). Each line represents a retrocopy.
Species	Rhinolophus ferrumequinum
Coordinates	scaffold_m29_p_1:83246462-83247135 UCSC
Strand	-
Parental Sequence	RPSA_x4
Parental seq. overlap	570 bp
Parental seq. overlap (%)	63.9%
Genomic Region	Intergenic
Retrocopy Summary	RPSAP2, located on scaffold_m29_p_1:83246462-83247135, 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
Human	Homo sapiens	RPSAP62
Chimpanzee	Pan troglodytes	RPSAP65
Bonobo	Pan paniscus	RPSAP66
Gorilla	Gorilla gorilla	RPSAP65
Orangutan	Pongo abelii	RPSAP67
Gibbon	Nomascus leucogenys	RPSAP66
Green monkey	Chlorocebus sabaeus	RPSAP56
Crab-eating macaque	Macaca fascicularis	RPSAP62
Rhesus	Macaca mulatta	RPSAP63
Baboon	Papio anubis	RPSAP57
Golden snub-nosed monkey	Rhinopithecus roxellana	RPSAP34
Marmoset	Callithrix jacchus	RPSAP70
Mouse lemur	Microcebus murinus	RPSAP43
Pig	Sus scrofa	RPSAP27
Dolphin	Tursiops truncatus	RPSAP39
Horse	Equus caballus	RPSAP37
Dog	Canis familiaris	RPSAP48
Panda	Ailuropoda melanoleuca	RPSAP46
Cat	Felis catus	RPSAP54
Velvety free-tailed bat	Molossus molossus	RPSAP10
Egyptian rousette	Rousettus aegyptiacus	RPSAP22
Mouse	Mus musculus	Without Homology
Rat	Rattus norvegicus	Without Homology
Chinese hamster	Cricetulus griseus	Without Homology
Rabbit	Oryctolagus cuniculus	Without Homology
Cow	Bos taurus	Without Homology
Sheep	Ovis aries	Without Homology
Pale spear-nosed bat	Phyllostomus discolor	Without Homology
Greater mouse-eared bat	Myotis myotis	Without Homology
Kuhl's pipistrelle	Pipistrellus kuhlii	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

>RPSAP2
ATGTCCAGAGCCCTTGCTGTCCTGCAGGTGAAGGAAGAGGATGTCCTTAAATTCCTTGCAGCAGGAACCCACTTAGGTGGCATCGACCTTGACTTCCAAATGGAACAGCACATCTACAAAAGGAAAAGTGATGGTATCTGCATCACAAAGAGAACCTCAGAGAAGCTTCTGCTGGTGGCTCATGCCCTTGTTGCCATTGAAAACCCAGCTGATGTCAATATCACATTGTCCAGGAATACGGGCCAACAAGCTGTGCTGAAGTTTGCTGCTGTCACTGGGGCCACTCCTACTGCTGGCTACTTCTTTCCTGGAGCCTTCACTAACCAGATCCAGGCAGCCTTTTGGGAGCTGCAACTTCGGGTGGTTACTGATCCCAGGACTGACCACCAGCCTTTCACAGAAGCATCTTATGTTAATCTGCCTACCATTGCTCTGTGTAACACAGATCTTCCTCTGCACCATATGGACATTGCCGTCAAGGAAACAACGATAAGGGAGCTGACTCAGTGGGTCTGATGTGGTGGATGTGGGCCCAGGAAGTTCTGTGCATGTGCAGGACCATCTCCCGTGAACATCCATGGGAGGTCATGCCTGACCTCTACTTTTACAGAGATCCTGAAGAGATTGAAAAGGAAGAGCAGGTTGCTGATGAAAAGGCTGTGACCAAGGAGGAA

>RPSA_x4
ATGTCCggagcccttgatgtcctgcaaatgaaagagGAGGATGTCCTCAAATTCCTTGCAGCAGGAACCCATTTAGGTGGCACCAACCTTGACTTCCAGATGGAACAGTACATCTACAAACGGAAAAGTGATGGCATCTACATCATAAATCTGAAGAGAACCTGGGAGAAGCTTCTGCTGGCAGCTCGTGCCATTGTTGCCATTGAAAACCCGGCTGATGTCAGTGTCATATCGTCCAGAAATACTGGCCAGCGAGCTGTGCTGAAGTTTGCCGCTGCCACCGGAGCCACGCCTATCGCCGGCCGCTTCACTCCTGGGACCTTCACTAACCAGATCCAGGCAGCCTTCCGGGAGCCGAGACTCCTGGTGGTGACCGATCCCCGGGCTGACCACCAACCTCTCACAGAGGCATCCTACGTTAACCTGCCGACCATCGCTCTGTGCAACACAGACTCTCCTCTGCGCTATGTGGACATTGCCATCCCTTGCAACAACAAGGGCGCTCACTCCGTGGGTCTGATGTGGTGGATGCTGGCCCGGGAAGTCCTGCGCATGCGTGGTACCATCTCCCGTGAGCACGCGTGGGAGGTCATGCCTGATCTCTACTTCTACAGAGACCCTGAGGAGATTGAAAAGGAAGAGCAGGCCGCCGCTGAGAAGGCCGTGACCAAGGAGGAGTTCCAGGGCGAATGGACCGCTCCAGCGCCCGAGTTCACTGCTGCTCAGCCTGAGGTCGCGGACTGGTCTGAAGGCGTGCAGGTGCCCGCCGTCCCCATTCAGCAGTTTCCTACTGAAGACTGGAGTGCCCAGCCTGCCACTGAAGACTGGTCTGCAGCCCCCACTGCTCAGGCCACTGAATGGGTGGGAACGACCACTGAGTGGTCCTGA

>RPSA_x4 

ATGTCCggagcccttgatgtcctgcaaatgaaagagGAGGATGTCCTCAAATTCCTTGCAGCAGGAACCCATTTAGGTGGCACCAACCTTGACTTCCAGATGGAACAGTACATCTACAAACGGAAAAGTGATGGCATCTACATCATAAATCTGAAGAGAACCTGGGAGAAGCTTCTGCTGGCAGCTCGTGCCATTGTTGCCATTGAAAACCCGGCTGATGTCAGTGTCATATCGTCCAGAAATACTGGCCAGCGAGCTGTGCTGAAGTTTGCCGCTGCCACCGGAGCCACGCCTATCGCCGGCCGCTTCACTCCTGGGACCTTCACTAACCAGATCCAGGCAGCCTTCCGGGAGCCGAGACTCCTGGTGGTGACCGATCCCCGGGCTGACCACCAACCTCTCACAGAGGCATCCTACGTTAACCTGCCGACCATCGCTCTGTGCAACACAGACTCTCCTCTGCGCTATGTGGACATTGCCATCCCTTGCAACAACAAGGGCGCTCACTCCGTGGGTCTGATGTGGTGGATGCTGGCCCGGGAAGTCCTGCGCATGCGTGGTACCATCTCCCGTGAGCACGCGTGGGAGGTCATGCCTGATCTCTACTTCTACAGAGACCCTGAGGAGATTGAAAAGGAAGAGCAGGCCGCCGCTGAGAAGGCCGTGACCAAGGAGGAGTTCCAGGGCGAATGGACCGCTCCAGCGCCCGAGTTCACTGCTGCTCAGCCTGAGGTCGCGGACTGGTCTGAAGGCGTGCAGGTGCCCGCCGTCCCCATTCAGCAGTTTCCTACTGAAGACTGGAGTGCCCAGCCTGCCACTGAAGACTGGTCTGCAGCCCCCACTGCTCAGGCCACTGAATGGGTGGGAACGACCACTGAGTGGTCCTGA

Publications

PMID - Link	Title
No publications available for this retrocopy