RCPedia: Rtcs

Summary

Retrocopy Name	EIF4A1P11	Plot displaying the genomic locations of a retrocopy (in chr19) and its respective parental gene (in chr19). Each line represents a retrocopy.
Species	Rhinopithecus roxellana
Coordinates	chr19:54667793-54669915 UCSC
Strand	+
Parental Sequence	XM_010362366.2
Parental seq. overlap	1242 bp
Parental seq. overlap (%)	65.4%
Genomic Region	Intergenic
Retrocopy Summary	EIF4A1P11, located on chr19:54667793-54669915, is a retrocopy of the parental gene EIF4A1. 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	EIF4A1
Full Name	N/A
Also known as	EIF4A1
Coordinate	chr19:69800132-69806729
Strand	+
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	EIF4A1P9
Chimpanzee	Pan troglodytes	EIF4A1P10
Bonobo	Pan paniscus	EIF4A1P11
Gorilla	Gorilla gorilla	EIF4A1P10
Orangutan	Pongo abelii	EIF4A1P9
Gibbon	Nomascus leucogenys	EIF4A1P12
Crab-eating macaque	Macaca fascicularis	EIF4A1P7
Rhesus	Macaca mulatta	EIF4A1P7
Baboon	Papio anubis	EIF4A1P9
Marmoset	Callithrix jacchus	EIF4A1P9
Green monkey	Chlorocebus sabaeus	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
Dolphin	Tursiops truncatus	Without Homology
Horse	Equus caballus	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
Velvety free-tailed bat	Molossus molossus	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
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

>EIF4A1P11
atctaagGATCATGTCTGCAAGTCAAGATTCCTGATCCAGACACAATGATCCTGATGGGATGGAGCATGGAGGTGTCATGGAGAGTAACTAGAATGAGATTGTAGATAGCTTTGATGACATGAACTTATCGGAGTCCCTTCTCCGTGGCTTCTACGCCTATGGTTTTCAGAAGCCCTCTGCCGTCCAGCAGCAAGGCATTCTACCTTGTATCAAGGGTTATGATGTGATCATTCAAGCCGAAGCTGGGACTAGGAAAACGGCCACATTTGCCATATCAATTCTGCAACAGATTGAATTAGATCTAAAGGCCACCCAGGTTTTGGTCCTAGCACTCACTCAGGAATTGGCTCAGCAGATACAGAAGGTGGTCATGGCACTAGGAGACTGCATGGGTGCCTCCTGTCATGCCTGTACTGGGGGCACCCACGTGCGTGCTGAGGTGCAGAAACCACAGAtggaagccacagaTGGAAGCTCCCCATGTCATTGTGGGTACCCCTGGCCGTGTGTTTGATAGCCTTAACCGGAGATACCTGTCTCCCAAATACATCAAGATATCAAGATGTTTGTACGAAGCTGGAAACATTTATTCAAACATCAAGATGTGTGGACGAAGCTGACGAAATGTTCAGCTGTGGATTCAGGGACCAGATCTACGACATATTCCAAAAACTCAACAGCAACATCCAGTTTGCCGTCAGCTACAGTGCCTTCTGATGTGCTTGAGGTGACCAAGAAATTCACGAAGGACCCCATTCAGATTCTTGACAAGAAGGAAGAGTTGACCTGGAGGGTATCCGCCAATTCTACATCAACATGGAACGAAAGGAGTGGAAGCGGGACACCCTGTGTGACTTGCATGAAACCCtgactgtcacccaggcagatGTCTTCATCAACACCCGAAGGAAGGTGGACTGGCTCCCTGAGAAGTTGCATGCTTGAGATTTCACTGTCTCTGCCATGCATGGAGATAAGGGTCAAGAGGAACAAGATGTGATCATgagggagtttcagtgaGGGCGTTTTGTTCTGGCTCTAGCAGAGTTTTGATTCCCGCTGACCTGCTGGCCAGAGGCATTGCTGTGCTGCAGGTTTCTTAACTCATCAACTATGACCTTCCCACCAACGGAGAAAACTATATCCACAGAATTGGTTGAGGTGGACAGTTTGGCCGTAAGGGTGTGGCTGTTAACATGGTGATAGAAGACAAGAGGACTCTTTGAGACATCGAGACCGTCTACAACACCTCCATTGAGGAAATGTCTCTCAATGTTGCTGACCTCATCTGAGGGGCTGTCCTGCTACCCAGCCCCAGCCAGGGTTCAATCTTGGGCAGCTGAGGAGCAGCAGGAAGGGGGACGGAAGGGGGCCAAGGGATGGACATCTTGTCATTTTTTCTTTGGATACATGTCACTTTTTGAggcaaa

>XM_010362366.2
GGGCCGGGGCAGCCAAGCCAATGCGATGGCCGGGGCGGAGTCGGGCGCTCTATAAGTTGTCGATAGGCGGGCACTCCGCCCTAGTTTCTAAGGATCATGTCTGCGAGCCAGGATTCCCGATCCAGAGACAATGGCCCCGATGGGATGGAGCCCGAAGGCGTCATCGAGAGTAACTGGAATGAGATTGTTGACAGCTTTGATGACATGAACCTCTCAGAGTCCCTTCTCCGTGGCATCTACGCCTATGGTTTTGAGAAGCCGTCTGCCATCCAGCAGCGAGCCATTCTACCTTGTATCAAGGGTTATGATGTGATCGCTCAAGCCCAATCTGGGACTGGGAAAACGGCCACATTTGCCATATCGATTCTGCAGCAGATCGAATTAGATCTAAAAGCCACCCAGGCCTTGGTCCTGGCACCCACTCGAGAATTGGCTCAGCAGATACAGAAGGTGGTCATGGCACTAGGAGACTACATGGGTGCCTCCTGTCATGCCTGTATTGGGGGCACCAACGTGCGTGCTGAGGTGCAGAAACTGCAGATGGAAGCCCCCCACATAATCGTGGGGACCCCTGGCCGAGTGTTTGATATGCTTAACCGGAGATACCTGTctcCCAAATACATCAAGATGTTTGTACTGGACGAAGCTGACGAAATGTTAAGCCGTGGGTTCAAGGACCAGATCTATGACATATTCCAAAAGCTCAACAGCAACACCCAGGTAGTTTTGCTGTCAGCTACAATGCCTTCTGATGTGCTTGAGGTGACCAAGAAGTTCATGAGGGACCCCATTCGGATTCTTGTCAAGAAGGAAGAGTTGACCCTGGAGGGTATCCGCCAATTCTACATCAACGTGGAACGAGAGGAGTGGAAGCTGGACACACTATGTGACTTGTATGAAACCCTGACCATCACCCAGGCAGTCATCTTCATCAACACCCGGAGGAAGGTGGACTGGCTCACCGAGAAGATGCATGCTCGAGATTTCACTGTCTCTGCCATGCATGGAGATATGGACCAAAAGGAACGAGATGTGATCATGAGGGAGTTTCGTTCTGGCTCTAGCAGAGTTTTGATTACCACTGACCTGCTGGCCAGAGGCATTGATGTGCAGCAGGTTTCTTTAGTCATCAACTATgaccttcccaccaacagggaAAACTATATCCACAGAATCGGTCGAGGTGGACGGTTTGGCCGTAAAGGTGTGGCTATTAACATGGTGACAGAAGAAGACAAGAGGACTCTTCGAGACATCGAGACCTTCTATAACACCTCCATTGAGGAAATGCCCCTCAATGTTGCTGACCTCATCTGAGGGGTTGTCCTGccacccagccccagccagggCTCAATCTCGGGGGGCTGAGGAGCAgcaggaggggggagggaagggagccaAGGGATGGacatcttgtcattttttttctttgaataaatgtcACTTTTTGAGGCAAAAGAAGGAACCGTGAACATTTTAGACACCCTTTTCTTTGGGGTAGGCTCTTGCCCCAGGCGCCGGCTCTTCTCCCAAAAAAACACTAATCCATTTCCCTAACCTAGTAACCTCCAGATCCCAGAGGCTCTCCTCACCTCAGCTGAGCTCCTTTGAAAGTGATTCAGGGGACTATGTCACTCAGCCTCATTTGCTGGACCAAATCTGGAGGGAGAACCCCTAAAACCCCTGAGTGAGGTTGCCCAGGGGGTTGTCCCCAGGTGGGGGGAAGCAGGGGAGAGAAAATGGTAGccatttttacattgttttgtaTAGTATTTATTGATTcaggaaacaaacacaaaattctgaataaaatgaCTTGGAAACTGCC

>XM_010362366.2 

GGGCCGGGGCAGCCAAGCCAATGCGATGGCCGGGGCGGAGTCGGGCGCTCTATAAGTTGTCGATAGGCGGGCACTCCGCCCTAGTTTCTAAGGATCATGTCTGCGAGCCAGGATTCCCGATCCAGAGACAATGGCCCCGATGGGATGGAGCCCGAAGGCGTCATCGAGAGTAACTGGAATGAGATTGTTGACAGCTTTGATGACATGAACCTCTCAGAGTCCCTTCTCCGTGGCATCTACGCCTATGGTTTTGAGAAGCCGTCTGCCATCCAGCAGCGAGCCATTCTACCTTGTATCAAGGGTTATGATGTGATCGCTCAAGCCCAATCTGGGACTGGGAAAACGGCCACATTTGCCATATCGATTCTGCAGCAGATCGAATTAGATCTAAAAGCCACCCAGGCCTTGGTCCTGGCACCCACTCGAGAATTGGCTCAGCAGATACAGAAGGTGGTCATGGCACTAGGAGACTACATGGGTGCCTCCTGTCATGCCTGTATTGGGGGCACCAACGTGCGTGCTGAGGTGCAGAAACTGCAGATGGAAGCCCCCCACATAATCGTGGGGACCCCTGGCCGAGTGTTTGATATGCTTAACCGGAGATACCTGTctcCCAAATACATCAAGATGTTTGTACTGGACGAAGCTGACGAAATGTTAAGCCGTGGGTTCAAGGACCAGATCTATGACATATTCCAAAAGCTCAACAGCAACACCCAGGTAGTTTTGCTGTCAGCTACAATGCCTTCTGATGTGCTTGAGGTGACCAAGAAGTTCATGAGGGACCCCATTCGGATTCTTGTCAAGAAGGAAGAGTTGACCCTGGAGGGTATCCGCCAATTCTACATCAACGTGGAACGAGAGGAGTGGAAGCTGGACACACTATGTGACTTGTATGAAACCCTGACCATCACCCAGGCAGTCATCTTCATCAACACCCGGAGGAAGGTGGACTGGCTCACCGAGAAGATGCATGCTCGAGATTTCACTGTCTCTGCCATGCATGGAGATATGGACCAAAAGGAACGAGATGTGATCATGAGGGAGTTTCGTTCTGGCTCTAGCAGAGTTTTGATTACCACTGACCTGCTGGCCAGAGGCATTGATGTGCAGCAGGTTTCTTTAGTCATCAACTATgaccttcccaccaacagggaAAACTATATCCACAGAATCGGTCGAGGTGGACGGTTTGGCCGTAAAGGTGTGGCTATTAACATGGTGACAGAAGAAGACAAGAGGACTCTTCGAGACATCGAGACCTTCTATAACACCTCCATTGAGGAAATGCCCCTCAATGTTGCTGACCTCATCTGAGGGGTTGTCCTGccacccagccccagccagggCTCAATCTCGGGGGGCTGAGGAGCAgcaggaggggggagggaagggagccaAGGGATGGacatcttgtcattttttttctttgaataaatgtcACTTTTTGAGGCAAAAGAAGGAACCGTGAACATTTTAGACACCCTTTTCTTTGGGGTAGGCTCTTGCCCCAGGCGCCGGCTCTTCTCCCAAAAAAACACTAATCCATTTCCCTAACCTAGTAACCTCCAGATCCCAGAGGCTCTCCTCACCTCAGCTGAGCTCCTTTGAAAGTGATTCAGGGGACTATGTCACTCAGCCTCATTTGCTGGACCAAATCTGGAGGGAGAACCCCTAAAACCCCTGAGTGAGGTTGCCCAGGGGGTTGTCCCCAGGTGGGGGGAAGCAGGGGAGAGAAAATGGTAGccatttttacattgttttgtaTAGTATTTATTGATTcaggaaacaaacacaaaattctgaataaaatgaCTTGGAAACTGCC

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