RCPedia: Rtcs

Summary

Retrocopy Name	EBAG9P1	Plot displaying the genomic locations of a retrocopy (in scaffold_m13_p_6) and its respective parental gene (in scaffold_m13_p_15). Each line represents a retrocopy.
Species	Rousettus aegyptiacus
Coordinates	scaffold_m13_p_6:38926874-38927739 UCSC
Strand	-
Parental Sequence	EBAG9_x1
Parental seq. overlap	739 bp
Parental seq. overlap (%)	67.1%
Genomic Region	Intragenic (ENTPD7)
Retrocopy Summary	EBAG9P1, located on scaffold_m13_p_6:38926874-38927739, is a retrocopy of the parental gene EBAG9. 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	EBAG9
Full Name	N/A
Also known as	NULL
Coordinate	scaffold_m13_p_15:40732863-40749914
Strand	+
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	EBAG9P1
Chimpanzee	Pan troglodytes	EBAG9P1
Bonobo	Pan paniscus	EBAG9P1
Gorilla	Gorilla gorilla	EBAG9P1
Orangutan	Pongo abelii	EBAG9P1
Gibbon	Nomascus leucogenys	EBAG9P1
Green monkey	Chlorocebus sabaeus	EBAG9P1
Crab-eating macaque	Macaca fascicularis	EBAG9P1
Rhesus	Macaca mulatta	EBAG9P1
Baboon	Papio anubis	EBAG9P1
Golden snub-nosed monkey	Rhinopithecus roxellana	EBAG9P1
Marmoset	Callithrix jacchus	EBAG9P1
Mouse lemur	Microcebus murinus	EBAG9P1
Horse	Equus caballus	EBAG9P1
Velvety free-tailed bat	Molossus molossus	EBAG9P1
Greater horseshoe bat	Rhinolophus ferrumequinum	EBAG9P1
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
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

>EBAG9P1
AGCAACAATATTCTCATTCTTGAAGAGATTAATATGCAGATCTTGCAGAGGACAGAAATTAGGACGAGACCAAGTAATTCTGTCAAACTGCAGTTAATTATTTGTCATTTCCTAAACAGACATTGAAGAGTGGACTTCGTGGGATGAGGACGCACCCACAGGCATAAAGACTGACGCAGAGAAGGGGAATATGGCGACACAACAAAATGCTTTGGAATAACTGGAGCCTATTTTAAGGATGAAACACCAACTATAAAGAAAACTTAGAAAACCATTATTAAGAAGAGAGAACGATTAAGTTTTGACATCTCAAGAAGCACAGGTTTCTCTGATAGATTAGCAACTACACAAGATGCATAATCACTCTTCTGAATTAGGTGACTTAGATACATGGCAAGAAAATGCCAATACATGCAATGGAGATAATGAAGCCTGGCAAATTCTGAGGCAGCAGAAAATAGCAGACAAAGAAAAAAGAGCAGCAGAACAATAAAGGAAGAAAATAGAAAAGAAAGCACAACAGCTAATGAAGAAGGAACAAAACAAAATTGGTGTGAAACTTTCATTACAATTGTTCTTCAGATGTCATATGCCACCAGAAGCCATCTGAGCTCCACAACCCAAGCAACATTTAAGAGTAGTAGTTGAGACTTACCAAAACAAAAAAAGACTTATGAGACAATATCTTCTTTAACATGATCCCAACATAAAACAGTTGATTGTTCCAGAGAAATTATTACAAATGGGATATACTATTACCTCTTCAAACTAGCGTTTCTAGCTAAGCAAATGGGAGTAAATAATTTTATGGTGGAAAAGAACTCTGCTATCATGCTTTCCTTCACTGTGCATAATGATAAAATAAT

>EBAG9_x1
AAATCTAAGTGAGTTCAGATTTTGATTCCCACCATGGCTATCACACAGTTTCGGTTATTTAAAGTTTGTACCTGCTTAGCAACAGTATTCTCATTCCTTAAGAGATTAATATGCAGATCTGGCAGAGGACGGAAATTAAGTGGAGACCAAATAACTTTGCCAACTACAGTTGATTATTCATCAGTTCCAAAACAGACAGATGTTGAAGAGTGGACTTCCTGGGATGAAGATGCACCCACAAGTGTAAAGATCGAAGGAGGGAATGGGAATGTGGCAACACAACAAAATGCTTTGGAACAACTGGAACCCGACTATTTTAAGGACATGACACCAACTATAAGGAAAACTCAGAAAATCATTATTAAGAAGAGAGAGCCATTAAATTATGGCATTCCAGATGGTAGCACAGGTTTCTCTAGTAGGTTAGCAGCTACACAGGATATGCCTTTCATCCATCAGTCGCCTGAGTTAGGTGACTTAGATACCTGGCAGGAAAATACCAATGCATGGGAAGAAGAAGAAGACGCGGCCTGGCAAGCAGAAGAAGTTCTGAGGCAGCAGAAGCTAGCGGACAGAGAAAAGAGAGCTGCAGAACAACAAAGAAAGAAAATGGAAAAGGAAGCACAGCGGCTAATGAAGAAAGAACAAAACAAAATTGGTGTGAAACTTTCATAACAAATGTTCTTCACATATACTAGTGCCAGTAGGAGAAATATGAGCTCCACAACCCAAGCAACATTTGTATGAGTCTAAGAGTATTTTCAGAATAAAAACACAATGTTTGATTTTAATGCATTCATCGGGCCATTCAGGATGCCAGGATTCTGTCAAAATACCTTGAACTTTTCGTGATCAAGACTCAAAAGAACAGAAGAAACTTATGAGACAATATTTTCTTCAATGTGCTCCAATATAAGACAGTTGTTTGCTGTAGAGAAATTATTACAAATAGAATATACCAGTACCTCTTCAAGCTAGAGTTTCTAGCTGAATAAATGGGTGTAAATAATTTTATGGTGGGAAAGAACCCTGCTGTCTATAATGCTTTCCTTCAATGTGCATAATGATAAAATAAATAATTTTAAATATTC

>EBAG9_x1 

AAATCTAAGTGAGTTCAGATTTTGATTCCCACCATGGCTATCACACAGTTTCGGTTATTTAAAGTTTGTACCTGCTTAGCAACAGTATTCTCATTCCTTAAGAGATTAATATGCAGATCTGGCAGAGGACGGAAATTAAGTGGAGACCAAATAACTTTGCCAACTACAGTTGATTATTCATCAGTTCCAAAACAGACAGATGTTGAAGAGTGGACTTCCTGGGATGAAGATGCACCCACAAGTGTAAAGATCGAAGGAGGGAATGGGAATGTGGCAACACAACAAAATGCTTTGGAACAACTGGAACCCGACTATTTTAAGGACATGACACCAACTATAAGGAAAACTCAGAAAATCATTATTAAGAAGAGAGAGCCATTAAATTATGGCATTCCAGATGGTAGCACAGGTTTCTCTAGTAGGTTAGCAGCTACACAGGATATGCCTTTCATCCATCAGTCGCCTGAGTTAGGTGACTTAGATACCTGGCAGGAAAATACCAATGCATGGGAAGAAGAAGAAGACGCGGCCTGGCAAGCAGAAGAAGTTCTGAGGCAGCAGAAGCTAGCGGACAGAGAAAAGAGAGCTGCAGAACAACAAAGAAAGAAAATGGAAAAGGAAGCACAGCGGCTAATGAAGAAAGAACAAAACAAAATTGGTGTGAAACTTTCATAACAAATGTTCTTCACATATACTAGTGCCAGTAGGAGAAATATGAGCTCCACAACCCAAGCAACATTTGTATGAGTCTAAGAGTATTTTCAGAATAAAAACACAATGTTTGATTTTAATGCATTCATCGGGCCATTCAGGATGCCAGGATTCTGTCAAAATACCTTGAACTTTTCGTGATCAAGACTCAAAAGAACAGAAGAAACTTATGAGACAATATTTTCTTCAATGTGCTCCAATATAAGACAGTTGTTTGCTGTAGAGAAATTATTACAAATAGAATATACCAGTACCTCTTCAAGCTAGAGTTTCTAGCTGAATAAATGGGTGTAAATAATTTTATGGTGGGAAAGAACCCTGCTGTCTATAATGCTTTCCTTCAATGTGCATAATGATAAAATAAATAATTTTAAATATTC

Publications

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