RCPedia: Rtcs

Summary

Retrocopy Name	SLC25A3P1	Plot displaying the genomic locations of a retrocopy (in scaffold_m13_p_5) and its respective parental gene (in scaffold_m13_p_2). Each line represents a retrocopy.
Species	Rousettus aegyptiacus
Coordinates	scaffold_m13_p_5:24445745-24447048 UCSC
Strand	-
Parental Sequence	SLC25A3_x1
Parental seq. overlap	1136 bp
Parental seq. overlap (%)	39.6%
Genomic Region	Intergenic
Retrocopy Summary	SLC25A3P1, located on scaffold_m13_p_5:24445745-24447048, is a retrocopy of the parental gene SLC25A3. 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	SLC25A3
Full Name	N/A
Also known as	NULL
Coordinate	scaffold_m13_p_2:159965412-159972286
Strand	+
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	AK4P2
Chimpanzee	Pan troglodytes	AK4P2
Bonobo	Pan paniscus	AK4P2
Gorilla	Gorilla gorilla	AK4P4
Orangutan	Pongo abelii	AK4P2
Gibbon	Nomascus leucogenys	AK4P4
Green monkey	Chlorocebus sabaeus	AK4P1
Crab-eating macaque	Macaca fascicularis	AK4P4
Rhesus	Macaca mulatta	AK4P4
Baboon	Papio anubis	AK4P3
Golden snub-nosed monkey	Rhinopithecus roxellana	AK4P2
Marmoset	Callithrix jacchus	AK4P1
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
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

>SLC25A3P1
CACAGATCTAAGGGCTCAGAGAACATTTGGCCTCTGTGAGCTGCAACCTTTCCAAGGAGCATCAGTGCATTTGCCATCTTAGAGAGATGTTCTTGTGCAGGGCGCACCTGGTACGGGTGAACTCCTTCAACACATCTCACCTGCAGCTGGTGTATGATGGCCTCACGGACCGCTTTGGCGCTCCTGCAACCTGGCAGCAACCACTGTGGAAGAGTACAGTTGTGAATATGCTCTATGAAGTTCTATGCACCATTTGGCTTTGGTGGGGTCTTAAGTTGTGGTCTGACACACACTGCTGTCATTCCTTTGGATTTAGTGAAATGCCATAAGCAGGTAGGCCCCCAAAAGTACAAGGGCGAAAGACAATTGGATTGTCTGGATTCTCAGTTACACTTCAAGAGGATGGTGTTTGTGGTTTGGCTAAAGGATGGCTCCGACCTTCATCAGCTACTCTATGCAGGGCTCCTCAAGTTTGGCTTTTATGAGCCTTTAAAGTCTCGTATAGCAACACGCTTGGAGAGGAGAACACCCATCTCCGGAGCACATCACATATTTGGCTGCCTCTACCAGCACTGAAGTTTTTGCTGACATTGCCCTGGCTCCTATGGAAGTTGCTAAGGTTCAAATTCAAACCCAACCAGGTTATGCCAACACTCTGAGGGATGCAGCTCCCAAGATGCATAAGGAAGAAAGCATAAAAACATTCTACAAGGGGGTTGCTTCTCTCTGGTTGAGATAGATACAATAATACACCATGATGAAGTTCTCCTGCTTTGAACATACTGTTGAAGCATCATGCAAATTTGTGGTTCCTAAACCCCACCAAGTGAATGCTCAAATGTAGTGCAGCTGGTTGTAACATTAGTGGCAGGTGACATAGCTGGAGTTTCCTGTGCAATTGTCTTTCACCCTGCTGATTCTGTGGTATCTGTGTTGAATAAAGAGAAAGGTGGCAGTGCTTCTCAGGTCCTCCAGACTTGGATATAAAGGTGTATGGAAGGGACTCTTTGCTCATGTCATCATGATTGGCATTCTACAACTCCTCGAAGGTCCACTTCAGGCTCCCTCACCCTCCTCTGCTGGAGATACTAGAGTCTCTGAAGAATCAGCTTGGGTTAATTCAGTAGATAGACCGGAGCAAACATGGACTAAATCTGCATGTTGGTCAGTGTTGAAGAAAGTGCTAAAGGAACGTTTGTATATTTGACAGTGTAGGAAATTGTCTCTTCTTGATAAAATTACTGCAGTATTCGGGCCTCAGGCAAGAGTTTCAAATCTGCTCTTGAAGTAAACCCAACTGTTCT

>SLC25A3_x1
GACGACGGGCGAAGGGCACAGATCTAAGGGCTCGGAGGACATTCGGTCTCTGTGAGCTGCAGCCTTTCCGAGGAGCGTCGTCTGTTCGCCATCTTAGGGAAGATGTTCTCGTCCGTGGCGCACCTGGCGCGGGCGAACCCCTTCAACGCGCCTCACCTGCAGCTGGTGTACGATGGCCTCGCAGGCCCTTGCAGCAGCCCCTCCGGACCCCCGGGCCCCCCCCGCCGCTCCCGCAACTTGGCGGCCGCCGCTGTGGAAGAGTACAGTTGTGAATATGGCTCCATGAAGTTTTATGCACTGTGTGGCTTTGGTGGGGTCTTAAGTTGTGGTCTGACACACACTGCTGTGGTTCCTCTGGATTTAGTGAAATGCCGAATGCAGGTTGGTATTGAGATGGCAATGTTGAATGCATCTTTTGTGTGTGACATAATTCCAAATAATCTTAAAGGACTTCACAAATGAGAAGAATCTGAAGACATTACAAGCCCTTTAATAGGAAACCAAACCTGAATTTCTGAACTCATGAACTTTATTTTAGTTAGTGTTTTAATCCAAGAAATGCCTATTTTAAGGTAAGAGTGTGGGTAGATTGTTGGATCTCAGACTCTGGCTGTAAATGTTTTTTTTTGCCGTTGGACTCTGTTCTAGCTAGAGTTCTCTTCAAGGCCTTCTGGTTCTTTATACTTCAGATGGCCATTTCATAAGCACTTACATATCAAAGTGAAGGTAATCGTTCTTTGTGTATTATGTAAAGTTTCTTTACATCTTTACTTATTGATAAGATTAAGGGAGAGAGCACTACGTAAATTTAAAAATATACTCAGTATCTTAGTATTAAAATTTTGTGACTTTAGCTTCTTGTATATTCACTTGCTTAAAAGGTGTTTTTTGTTGTTGTTTATTTTTTACAATTAGAATATCTTAATTAGGATTATTGTAACAAAAATAATCAAACCTCAAAAATTTATTTGTTCCAAACAGGATTAGAAGTCTACTTACCTAAAAGAGAAAGGAAGGTGAAATATTAGCAGGGAGAGGAAGGTGACGTATACCAGAAATAGATAAGATTTTTTTTCCCATTTAGTTAATAGAATAGATATGAAATATGCCTTCACTAAAACTTCTCATGCATGTCTTTTAAAGTGAATTTAAGTTAAAAGACAGGTTTTCATTATGTCGATATACCTTTTTAACATGTATTTAGTTTGTCTTAAGTTCACAGATTTTTATAGTATAACCTACTTAATGGGCTAACATATTAAGGATATAcaggcatacctcacttttttgcactctgttctattgtgcttcatagatacagtatttttttttttaagatgtatactgttttttagacataatgctcttgcatacttaatatacgacagtatagtgtaaaaataacttttaatttgctgggaaaccagaagatttgtgtggctttattgcaatattttatttactgcggtggtctggaactgaatttgcagtatctccagggtatgcctgTAGAGTTGTCTTTTATTTAGGCAGTAGCTTTAAAACTATTTTTGTTAAGTGATATAATTGGATGCTGAAAAATCTCTTAAAGAGTCAGATTTATTGTGTATTTTTTGTTAGATATTTTATCGTCTTAACTAACCCTCTGAGACTTACTTTAACTGAAAGAACATAAGACTTTAATGTACAAAAGTACTTTATAGCTTTTAAGCCAATAGCATATGTGAGCTTGTGTTTACCTTTTGTGTAGTTACTGAAGTTTATTTTAGAACCAAAAGGAAAAACTAATAATAACAAAATTAAATATTTATGAGAAGTGGTAGTTCTCTGATACATTTAATTACTTTTTTTTTCTTGTTTTAAATACAGGTGGACCCCCAGAAGTACAAAGGCATATTTAATGGATTCTCAGTTACACTTAAAGAGGATGGTGTTCGAGGTTTGGCTAAAGGATGGGCTCCGACTTTCATTGGCTACTCTATGCAGGGGCTCTGCAAGTTTGGCTTTTATGAAGTCTTCAAAGTGTTGTATAGCAACATGCTTGGAGAGGAGAACACCTATCTCTGGCGCACATCACTGTACTTGGCCGCCTCTGCCAGTGCTGAATTCTTTGCTGACATTGCCCTGGCTCCTATGGAAGCTGCTAAGGTTCGAATCCAAACCCAACCAGGTTATGCCAACACTCTGAGGGATGCAGCTCCCAAAATGTATAAGGAAGAAGGCATAAACGCATTCTACAAGGGGGTTGCTCCTCTCTGGATGAGACAGATACCATATACCATGATGAAGTTTGCCTGCTTTGAACGGACTGTTGAAGCATTGTACAAGTTTGTGGTTCCTAAGCCCCGAAGTGAATGTTCAAAGGCAGAGCAGCTGGTTGTAACATTTGTGGCAGGTTACATAGCTGGAGTCTTTTGTGCAATCGTTTCTCACCCTGCTGACTCTGTGGTGTCTGTGTTGAATAAAGAGAAAGGTAGCAGTGCTTCTCAGGTCCTCCAGAGACTTGGATTTAAAGGTGTATGGAAGGGACTCTTCGCCCGTATCATCATGATCGGCACTCTGACTGCACTACAGTGGTTCATCTATGACTCCGTGAAGGTCTACTTCAGGCTTCCTCGCCCTCCTCCACCCGAGATGCCAGAGTCTCTGAAGAAGAAGCTTGGGTTGACTCAGTAGATAGAGCAAAGCAAATATGGACTGAATCTGCTTGTTGGTCAGTGTTGAGGAAAGTGCTAAAGGAACTTTTATATATTTGACAATGTAGGAAATTGTCTTCCTGAAATAATTACTGTAGTGCTCTTGCCTAAGGCAAGAGTTTCAAACTTGCTGTTGAAATAAACCCAACTGTTCATG

>SLC25A3_x1 

GACGACGGGCGAAGGGCACAGATCTAAGGGCTCGGAGGACATTCGGTCTCTGTGAGCTGCAGCCTTTCCGAGGAGCGTCGTCTGTTCGCCATCTTAGGGAAGATGTTCTCGTCCGTGGCGCACCTGGCGCGGGCGAACCCCTTCAACGCGCCTCACCTGCAGCTGGTGTACGATGGCCTCGCAGGCCCTTGCAGCAGCCCCTCCGGACCCCCGGGCCCCCCCCGCCGCTCCCGCAACTTGGCGGCCGCCGCTGTGGAAGAGTACAGTTGTGAATATGGCTCCATGAAGTTTTATGCACTGTGTGGCTTTGGTGGGGTCTTAAGTTGTGGTCTGACACACACTGCTGTGGTTCCTCTGGATTTAGTGAAATGCCGAATGCAGGTTGGTATTGAGATGGCAATGTTGAATGCATCTTTTGTGTGTGACATAATTCCAAATAATCTTAAAGGACTTCACAAATGAGAAGAATCTGAAGACATTACAAGCCCTTTAATAGGAAACCAAACCTGAATTTCTGAACTCATGAACTTTATTTTAGTTAGTGTTTTAATCCAAGAAATGCCTATTTTAAGGTAAGAGTGTGGGTAGATTGTTGGATCTCAGACTCTGGCTGTAAATGTTTTTTTTTGCCGTTGGACTCTGTTCTAGCTAGAGTTCTCTTCAAGGCCTTCTGGTTCTTTATACTTCAGATGGCCATTTCATAAGCACTTACATATCAAAGTGAAGGTAATCGTTCTTTGTGTATTATGTAAAGTTTCTTTACATCTTTACTTATTGATAAGATTAAGGGAGAGAGCACTACGTAAATTTAAAAATATACTCAGTATCTTAGTATTAAAATTTTGTGACTTTAGCTTCTTGTATATTCACTTGCTTAAAAGGTGTTTTTTGTTGTTGTTTATTTTTTACAATTAGAATATCTTAATTAGGATTATTGTAACAAAAATAATCAAACCTCAAAAATTTATTTGTTCCAAACAGGATTAGAAGTCTACTTACCTAAAAGAGAAAGGAAGGTGAAATATTAGCAGGGAGAGGAAGGTGACGTATACCAGAAATAGATAAGATTTTTTTTCCCATTTAGTTAATAGAATAGATATGAAATATGCCTTCACTAAAACTTCTCATGCATGTCTTTTAAAGTGAATTTAAGTTAAAAGACAGGTTTTCATTATGTCGATATACCTTTTTAACATGTATTTAGTTTGTCTTAAGTTCACAGATTTTTATAGTATAACCTACTTAATGGGCTAACATATTAAGGATATAcaggcatacctcacttttttgcactctgttctattgtgcttcatagatacagtatttttttttttaagatgtatactgttttttagacataatgctcttgcatacttaatatacgacagtatagtgtaaaaataacttttaatttgctgggaaaccagaagatttgtgtggctttattgcaatattttatttactgcggtggtctggaactgaatttgcagtatctccagggtatgcctgTAGAGTTGTCTTTTATTTAGGCAGTAGCTTTAAAACTATTTTTGTTAAGTGATATAATTGGATGCTGAAAAATCTCTTAAAGAGTCAGATTTATTGTGTATTTTTTGTTAGATATTTTATCGTCTTAACTAACCCTCTGAGACTTACTTTAACTGAAAGAACATAAGACTTTAATGTACAAAAGTACTTTATAGCTTTTAAGCCAATAGCATATGTGAGCTTGTGTTTACCTTTTGTGTAGTTACTGAAGTTTATTTTAGAACCAAAAGGAAAAACTAATAATAACAAAATTAAATATTTATGAGAAGTGGTAGTTCTCTGATACATTTAATTACTTTTTTTTTCTTGTTTTAAATACAGGTGGACCCCCAGAAGTACAAAGGCATATTTAATGGATTCTCAGTTACACTTAAAGAGGATGGTGTTCGAGGTTTGGCTAAAGGATGGGCTCCGACTTTCATTGGCTACTCTATGCAGGGGCTCTGCAAGTTTGGCTTTTATGAAGTCTTCAAAGTGTTGTATAGCAACATGCTTGGAGAGGAGAACACCTATCTCTGGCGCACATCACTGTACTTGGCCGCCTCTGCCAGTGCTGAATTCTTTGCTGACATTGCCCTGGCTCCTATGGAAGCTGCTAAGGTTCGAATCCAAACCCAACCAGGTTATGCCAACACTCTGAGGGATGCAGCTCCCAAAATGTATAAGGAAGAAGGCATAAACGCATTCTACAAGGGGGTTGCTCCTCTCTGGATGAGACAGATACCATATACCATGATGAAGTTTGCCTGCTTTGAACGGACTGTTGAAGCATTGTACAAGTTTGTGGTTCCTAAGCCCCGAAGTGAATGTTCAAAGGCAGAGCAGCTGGTTGTAACATTTGTGGCAGGTTACATAGCTGGAGTCTTTTGTGCAATCGTTTCTCACCCTGCTGACTCTGTGGTGTCTGTGTTGAATAAAGAGAAAGGTAGCAGTGCTTCTCAGGTCCTCCAGAGACTTGGATTTAAAGGTGTATGGAAGGGACTCTTCGCCCGTATCATCATGATCGGCACTCTGACTGCACTACAGTGGTTCATCTATGACTCCGTGAAGGTCTACTTCAGGCTTCCTCGCCCTCCTCCACCCGAGATGCCAGAGTCTCTGAAGAAGAAGCTTGGGTTGACTCAGTAGATAGAGCAAAGCAAATATGGACTGAATCTGCTTGTTGGTCAGTGTTGAGGAAAGTGCTAAAGGAACTTTTATATATTTGACAATGTAGGAAATTGTCTTCCTGAAATAATTACTGTAGTGCTCTTGCCTAAGGCAAGAGTTTCAAACTTGCTGTTGAAATAAACCCAACTGTTCATG

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