RCPedia: Rtcs

Summary

Retrocopy Name	AK3P1	Plot displaying the genomic locations of a retrocopy (in scaffold_m16_p_3) and its respective parental gene (in scaffold_m16_p_14). Each line represents a retrocopy.
Species	Molossus molossus
Coordinates	scaffold_m16_p_3:83153089-83153439 UCSC
Strand	+
Parental Sequence	AK3_x1
Parental seq. overlap	292 bp
Parental seq. overlap (%)	28.9%
Genomic Region	Intergenic
Retrocopy Summary	AK3P1, located on scaffold_m16_p_3:83153089-83153439, is a retrocopy of the parental gene AK3. 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	AK3
Full Name	N/A
Also known as	NULL
Coordinate	scaffold_m16_p_14:56607044-56622359
Strand	-
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	AK3P4
Chimpanzee	Pan troglodytes	AK3P2
Bonobo	Pan paniscus	AK3P2
Gorilla	Gorilla gorilla	AK3P2
Orangutan	Pongo abelii	AK3P2
Gibbon	Nomascus leucogenys	AK3P1
Cow	Bos taurus	AK3P1
Sheep	Ovis aries	AK3P1
Dolphin	Tursiops truncatus	AK3P1
Horse	Equus caballus	AK3P2
Dog	Canis familiaris	AK3P5
Cat	Felis catus	AK3P1
Pale spear-nosed bat	Phyllostomus discolor	AK3P1
Greater horseshoe bat	Rhinolophus ferrumequinum	AK3P1
Sloth	Choloepus didactylus	AK3P1
Green monkey	Chlorocebus sabaeus	Without Homology
Crab-eating macaque	Macaca fascicularis	Without Homology
Rhesus	Macaca mulatta	Without Homology
Baboon	Papio anubis	Without Homology
Golden snub-nosed monkey	Rhinopithecus roxellana	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
Panda	Ailuropoda melanoleuca	Without Homology
Greater mouse-eared bat	Myotis myotis	Without Homology
Kuhl's pipistrelle	Pipistrellus kuhlii	Without Homology
Egyptian rousette	Rousettus aegyptiacus	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

>AK3P1
CCTGAACGTGCCCTTTGAGGTCATCATGCAACGCCTCGCTGCTCGCTGGCTTCACCCAGCCAGTGGCCGCGTCTACAACCTTGAATTCAACCCTCCCAAAGTGGTCGGCCTGGATGATCTGACTGGAGAGCCTCTCGTTAAGCGTGAGGATGGTAGACCAGAGACGCTTATCAAGAGACTGAAGGCTTACAAAGACCAGACAAAACCGGTCCTGGAATATTACCACAAAAAGGGGGTGTTGGAAATGTTCTCCAGAACAGAAACCAGTAAGCTCTGGCCCTATATACATGCTTGCCTGCAAACGAAATGTCCCACAAATACACCAGAAGCATCAATTACTCCAGGAGGAAA

>AK3_x1
accataaccaccgaacaagtatttatggaatcaatgCAAGGCAAATAAGAGAGCCCGAGGGGCAGCCAGAACTTTCAGGCTACGTCGTCGAGTAAAGAAATCGGTGTGTTAGCTAAGACTTTCATTGAACAAGGGAAGCTCATCCCAGATGATGTCATGACTCGGCTGGCCTTCCATGAGCTGAAAAACCTCACCCAATATAACTGGCTGCTGGATGGCTTTCCAAGGACTCTTCCTCAGGCAGAAGCCCTGGATAGAGCTTATCAGATCGACACTGTGATTAATCTGAAAGTGCCCTTTGAGGTCATTAAGCAACGCCTCACAGCTCGCTGGATTCATCCAGCCAGTGGCCGAGTCTACAACATCGAATTCAACCCTCCCAAAACTGTGGGCATTGATGATCTAACTGGAGAGCCTCTTATTCAGCGAGAGGATGATAAACCAGAGACCGTTATCAAGAGACTGAAGGCTTACGAAGCTCAAACAGAGCCAGTCTTGGAATACTACCAGAAAAAAGGAGTGTTGGAAACATTCTCCGGAACTGAAACCAACAAGATCTGGCCCTATGTATATGCCTTCCTACAAACCAAAGTTCCACAGATAAACCAGAAATCGTCAGTTACTCCATGAGGAAAAGCGTGTGTAAGGAGTAACATGAGCAGAAGCTCCTCATCATTAGAAGGTCCTTGTCCTAAAACTCAGATGTGTATGAACTTTTTGAAAATTATATTAGTTTCATTTCTACCAAATTCTGGAAATTAAGGAGGTGCCAAATGAGTCAGATACTAAGATCTGTCTTTTGAAATAATCTATTATATTTTATTCAGTTATGTTCTATGGGAACACAATACAAAAAAAATCAGAGATGTCTAACGGAACTTTTGAAAATCATTTAGAGCGTAATTAAAAGAGCAACTGTTAGTAGTCTAACCTTTGTTCAGCAGAGTAAGAGATTGATAAAGTTTCCTTATTTTTCTGGAAAAGTAAAAATAAAAAATTGCATGTCATTTG

>AK3_x1 

accataaccaccgaacaagtatttatggaatcaatgCAAGGCAAATAAGAGAGCCCGAGGGGCAGCCAGAACTTTCAGGCTACGTCGTCGAGTAAAGAAATCGGTGTGTTAGCTAAGACTTTCATTGAACAAGGGAAGCTCATCCCAGATGATGTCATGACTCGGCTGGCCTTCCATGAGCTGAAAAACCTCACCCAATATAACTGGCTGCTGGATGGCTTTCCAAGGACTCTTCCTCAGGCAGAAGCCCTGGATAGAGCTTATCAGATCGACACTGTGATTAATCTGAAAGTGCCCTTTGAGGTCATTAAGCAACGCCTCACAGCTCGCTGGATTCATCCAGCCAGTGGCCGAGTCTACAACATCGAATTCAACCCTCCCAAAACTGTGGGCATTGATGATCTAACTGGAGAGCCTCTTATTCAGCGAGAGGATGATAAACCAGAGACCGTTATCAAGAGACTGAAGGCTTACGAAGCTCAAACAGAGCCAGTCTTGGAATACTACCAGAAAAAAGGAGTGTTGGAAACATTCTCCGGAACTGAAACCAACAAGATCTGGCCCTATGTATATGCCTTCCTACAAACCAAAGTTCCACAGATAAACCAGAAATCGTCAGTTACTCCATGAGGAAAAGCGTGTGTAAGGAGTAACATGAGCAGAAGCTCCTCATCATTAGAAGGTCCTTGTCCTAAAACTCAGATGTGTATGAACTTTTTGAAAATTATATTAGTTTCATTTCTACCAAATTCTGGAAATTAAGGAGGTGCCAAATGAGTCAGATACTAAGATCTGTCTTTTGAAATAATCTATTATATTTTATTCAGTTATGTTCTATGGGAACACAATACAAAAAAAATCAGAGATGTCTAACGGAACTTTTGAAAATCATTTAGAGCGTAATTAAAAGAGCAACTGTTAGTAGTCTAACCTTTGTTCAGCAGAGTAAGAGATTGATAAAGTTTCCTTATTTTTCTGGAAAAGTAAAAATAAAAAATTGCATGTCATTTG

Publications

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