RCPedia: Rtcs

Summary

Retrocopy Name	DDX5P2	Plot displaying the genomic locations of a retrocopy (in scaffold_m19_p_2) and its respective parental gene (in scaffold_m19_p_17). Each line represents a retrocopy.
Species	Myotis myotis
Coordinates	scaffold_m19_p_2:181621091-181621527 UCSC
Strand	+
Parental Sequence	DDX5_x3
Parental seq. overlap	363 bp
Parental seq. overlap (%)	16%
Genomic Region	Intragenic (NAALADL2)
Retrocopy Summary	DDX5P2, located on scaffold_m19_p_2:181621091-181621527, is a retrocopy of the parental gene DDX5. 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	DDX5
Full Name	N/A
Also known as	NULL
Coordinate	scaffold_m19_p_17:18252113-18259122
Strand	+
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	DDX5P1
Chimpanzee	Pan troglodytes	DDX5P1
Bonobo	Pan paniscus	DDX5P1
Gorilla	Gorilla gorilla	DDX5P1
Orangutan	Pongo abelii	DDX5P1
Gibbon	Nomascus leucogenys	DDX5P1
Green monkey	Chlorocebus sabaeus	DDX5P1
Crab-eating macaque	Macaca fascicularis	DDX5P1
Rhesus	Macaca mulatta	DDX5P1
Baboon	Papio anubis	DDX5P1
Golden snub-nosed monkey	Rhinopithecus roxellana	DDX5P1
Marmoset	Callithrix jacchus	DDX5P1
Mouse lemur	Microcebus murinus	DDX5P1
Horse	Equus caballus	DDX5P1
Velvety free-tailed bat	Molossus molossus	DDX5P2
Kuhl's pipistrelle	Pipistrellus kuhlii	DDX5P1
Greater horseshoe bat	Rhinolophus ferrumequinum	DDX5P1
Egyptian rousette	Rousettus aegyptiacus	DDX5P1
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
Dog	Canis familiaris	Without Homology
Panda	Ailuropoda melanoleuca	Without Homology
Cat	Felis catus	Without Homology
Pale spear-nosed bat	Phyllostomus discolor	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

>DDX5P2
TACTTTCTTCACACCTATTAACATAAAGCAAGTAAGAGACTTTACTTTCTGAAGCTAATCAAATAATTAATCCCAAATTGCTTTAGTTGGTCAAAGACAGAGATTCTGGTCATTCTAGTAGTAGAGGAGGCATGAAGGATGACCACAACATTGTTCATATAAAAAGGGGTGGAATTAGTACTTTTGTATACAGGGAAAATCATAACAGAGGTTACTTTAGTCTGCTTCAGAGAAATTTGAGGGCAAAAATGCAAAATGTTGTTTACAGTAGTGTAAATTACATCTGTGCTTTGAAAGTCATTTTGTGTCTGTTGGTATACAGACTGGTTTTAGGACTAGTAATTCAACAGAGAATTACCAGAATGGTTATGATAGCACTCAGCAATATGAAATTAATGTTCCAAATATGTACCTAGTATGAGCCAACAGACATATGC

>DDX5_x3
ACCTCATTCATTTCCACCGGCCTGTAGGCGAGCAGCTCCGGCTCCTATCATCGCCGTCCTTCCGCCGCTGCCGCCCCCGCAAGGCTTCGCTATCGCCGAAGCCGCCTCCAGCGACTCGTCGCACCCGATTCTCTCCACTTCGTTCCCCGCCAACCGCAATCATTGACGCCATGTCGGGCTATTCGAGTGACCGGGACCGCGGCCGGGATCGAGGGTTTGGTGCACCTCGATTTGGAGGAAGTAGGGCAGGGCCTCTATCAGGAAAGAAGTTTGGAAACCCTGGGGAGAAACTAGTTAAAAAGAAGTGGAATCTTGATGAGCTGCCCAAATTTGAGAAGAATTTTTACCAAGAACACCCTGATTTGGCCAGGCGCACAGCGCAAGAGGTAGAGACATACAGAAGAAGCAAGGAAATTACAGTTAGAGGACACAACTGCCCAAAGCCAGTTCTGAATTTTTATGAAGCAAACTTCCCTGCAAACATCATGGATGTGATTGCAAGACAGAACTTTACTGAACCCACTGCTATTCAAGCTCAGGGATGGCCAGTTGCCCTAAGTGGATTGGATATGGTTGGAGTAGCACAGACTGGATCTGGGAAAACATTGTCTTATTTGCTGCCTGCCATTGTCCACATCAATCATCAGCCGTTCCTAGAGAGAGGTGATGGGCCCATTTGGCTGCTGAATACTGTAGAGCATGCCGATTGAAGTCTACTTGCATCTATGGTGGTGCTCCCAAGGGACCACAAATACGAGATTTGGAGAGAGGTGTGGAAATCTGTATTGCAACACCTGGAAGACTGATTGACTTTTTAGAGTGTGGAAAAACAAATCTGAGAAGAACCACCTACCTTGTCCTTGATGAAGCAGATAGAATGCTTGATATGGGTTTCGAACCCCAAATAAGAAAGATTGTGGATCAGATAAGACCTGACAGGCAAACCCTAATGTGGAGTGCAACTTGGCCAAAAGAAGTAAGACAGCTTGCTGAAGATTTCCTGAAAGACTATATTCATATAAACATTGGTGCACTGGAACTGAGTGCAAACCACAACATTCTTCAGATTGTGGATGTGTGTCATGATGTAGAAAAGGATGAAAAACTTATTCGTCTGATGGAAGAGATCATGAGTGAGAAGGAGAATAAAACCATTGTCTTTGTTGAAACCAAAAGAAGATGTGATGAACTTACTAGAAAAATGAGGAGAGACGGGTGGCCTGCCATGGGTATTCATGGTGACAAGAGTCAACAGGAACGTGATTGGGTTCTAAATGAATTCAAACATGGGAAAGCTCCTATTCTGATTGCTACAGATGTGGCTTCCAGAGGGCTAGATGTGGAAGATGTGAAATTTGTCATCAATTATGACTACCCTAACTCCTCAGAGGATTATATTCATCGAATTGGAAGAACTGCTCGCAGTACCAAAACAGGCACAGCATACACTTTCTTTACACCTAATAATATAAAGCAAGTGAGCGACCTTATCTCTGTGCTTCGTGAAGCTAATCAAGCAATTAATCCCAAGTTGCTTCAGTTGGTTGAAGACAGAGGTTCAGGTCGTTCCAGGGGTAGAGGAGGCATGAAGGATGACCGTCGGGACAGatactcttcaggcaaaatgggtggatctaatacctttagagacagggaaaattatgacagaggttactctagtctgcttaagagggattttggggcaaagacccagaatggtgtttacagtgctacaaattacaccaatgggaactttggaagtaattttgtgtctgctggtatacagactagttttaggactggtaatccaacagggacttaccaaaatgggtatgatagcactcagtaatatggaagtaatgttccaaatatgcacaatggtatgaaccaacaggcatatgcatatcctgctactgcagctacacctgtgattggttatccaatgccaacaagatattctcaataagactttagaagtatatgtaaatgtctgtttttcataattgctgtttatattgtgtgttagcagacaagatagttatttaagaaacatgggaaatgcagaaataactgcagtgcagcagtaattatggtgcactttttcgctacttaagttggatatttctctacattcctgaaacaatttttaggttttttttgtactagaaaatgcaggcagtgttttcacaaagtaaatgtacagtgatttgaaatacaaTGAATGAAGGCAATGCATGGCCTTCCAATAAAAAATATTTGAAGACTG

>DDX5_x3 

ACCTCATTCATTTCCACCGGCCTGTAGGCGAGCAGCTCCGGCTCCTATCATCGCCGTCCTTCCGCCGCTGCCGCCCCCGCAAGGCTTCGCTATCGCCGAAGCCGCCTCCAGCGACTCGTCGCACCCGATTCTCTCCACTTCGTTCCCCGCCAACCGCAATCATTGACGCCATGTCGGGCTATTCGAGTGACCGGGACCGCGGCCGGGATCGAGGGTTTGGTGCACCTCGATTTGGAGGAAGTAGGGCAGGGCCTCTATCAGGAAAGAAGTTTGGAAACCCTGGGGAGAAACTAGTTAAAAAGAAGTGGAATCTTGATGAGCTGCCCAAATTTGAGAAGAATTTTTACCAAGAACACCCTGATTTGGCCAGGCGCACAGCGCAAGAGGTAGAGACATACAGAAGAAGCAAGGAAATTACAGTTAGAGGACACAACTGCCCAAAGCCAGTTCTGAATTTTTATGAAGCAAACTTCCCTGCAAACATCATGGATGTGATTGCAAGACAGAACTTTACTGAACCCACTGCTATTCAAGCTCAGGGATGGCCAGTTGCCCTAAGTGGATTGGATATGGTTGGAGTAGCACAGACTGGATCTGGGAAAACATTGTCTTATTTGCTGCCTGCCATTGTCCACATCAATCATCAGCCGTTCCTAGAGAGAGGTGATGGGCCCATTTGGCTGCTGAATACTGTAGAGCATGCCGATTGAAGTCTACTTGCATCTATGGTGGTGCTCCCAAGGGACCACAAATACGAGATTTGGAGAGAGGTGTGGAAATCTGTATTGCAACACCTGGAAGACTGATTGACTTTTTAGAGTGTGGAAAAACAAATCTGAGAAGAACCACCTACCTTGTCCTTGATGAAGCAGATAGAATGCTTGATATGGGTTTCGAACCCCAAATAAGAAAGATTGTGGATCAGATAAGACCTGACAGGCAAACCCTAATGTGGAGTGCAACTTGGCCAAAAGAAGTAAGACAGCTTGCTGAAGATTTCCTGAAAGACTATATTCATATAAACATTGGTGCACTGGAACTGAGTGCAAACCACAACATTCTTCAGATTGTGGATGTGTGTCATGATGTAGAAAAGGATGAAAAACTTATTCGTCTGATGGAAGAGATCATGAGTGAGAAGGAGAATAAAACCATTGTCTTTGTTGAAACCAAAAGAAGATGTGATGAACTTACTAGAAAAATGAGGAGAGACGGGTGGCCTGCCATGGGTATTCATGGTGACAAGAGTCAACAGGAACGTGATTGGGTTCTAAATGAATTCAAACATGGGAAAGCTCCTATTCTGATTGCTACAGATGTGGCTTCCAGAGGGCTAGATGTGGAAGATGTGAAATTTGTCATCAATTATGACTACCCTAACTCCTCAGAGGATTATATTCATCGAATTGGAAGAACTGCTCGCAGTACCAAAACAGGCACAGCATACACTTTCTTTACACCTAATAATATAAAGCAAGTGAGCGACCTTATCTCTGTGCTTCGTGAAGCTAATCAAGCAATTAATCCCAAGTTGCTTCAGTTGGTTGAAGACAGAGGTTCAGGTCGTTCCAGGGGTAGAGGAGGCATGAAGGATGACCGTCGGGACAGatactcttcaggcaaaatgggtggatctaatacctttagagacagggaaaattatgacagaggttactctagtctgcttaagagggattttggggcaaagacccagaatggtgtttacagtgctacaaattacaccaatgggaactttggaagtaattttgtgtctgctggtatacagactagttttaggactggtaatccaacagggacttaccaaaatgggtatgatagcactcagtaatatggaagtaatgttccaaatatgcacaatggtatgaaccaacaggcatatgcatatcctgctactgcagctacacctgtgattggttatccaatgccaacaagatattctcaataagactttagaagtatatgtaaatgtctgtttttcataattgctgtttatattgtgtgttagcagacaagatagttatttaagaaacatgggaaatgcagaaataactgcagtgcagcagtaattatggtgcactttttcgctacttaagttggatatttctctacattcctgaaacaatttttaggttttttttgtactagaaaatgcaggcagtgttttcacaaagtaaatgtacagtgatttgaaatacaaTGAATGAAGGCAATGCATGGCCTTCCAATAAAAAATATTTGAAGACTG

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