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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name Atp5a1P1
Plot displaying the genomic locations of a retrocopy (in chr7) and its respective parental gene (in chr18). Each line represents a retrocopy.
Species Rattus norvegicus
Coordinates chr7:45966648-45966924  UCSC
Strand +
Parental Sequence NM_023093.1
Parental seq. overlap 237 bp
Parental seq. overlap (%) 12.8%
Genomic Region Intergenic
Retrocopy Summary Atp5a1P1, located on chr7:45966648-45966924, is a retrocopy of the parental gene Atp5f1a. 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 Atp5f1a
Full Name ATP synthase F1 subunit alpha
Also known as Atp5a1
Coordinate chr18:74156553-74164490
Strand +
Gene summary Enables ADP binding activity; ATP binding activity; and protease binding activity. Contributes to ATP hydrolysis activity. Involved in several processes, including cellular response to dexamethasone stimulus; cellular response to nitric oxide; and response to muscle activity. Located in several cellular components, including cell surface; membrane raft; and mitochondrial inner membrane. Part of mitochondrial proton-transporting ATP synthase complex, catalytic sector F(1). Used to study non-alcoholic fatty liver disease and pulmonary hypertension. Biomarker of Alzheimer's disease and hypertension. Human ortholog(s) of this gene implicated in combined oxidative phosphorylation deficiency 22 and mitochondrial complex V (ATP synthase) deficiency nuclear type 4. Orthologous to human ATP5F1A (ATP synthase F1 subunit alpha). [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Human Homo sapiens Without Homology
Chimpanzee Pan troglodytes Without Homology
Bonobo Pan paniscus Without Homology
Gorilla Gorilla gorilla Without Homology
Orangutan Pongo abelii Without Homology
Gibbon Nomascus leucogenys Without Homology
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
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

>Atp5a1P1
TAAGTTTGAGAATGCTTTCTTGTCTCATGCTATCAGCCAGCACCAGTCCTTCTTGGTCAATATCAGGGTTGATGAGAAAAATCTCAGAAGAGTCAGATGCAAAGCTGAAAGAGATTGTAACAAACTTCTTAGCTGGGTTTAAACCATAAAGCCCTATCACTGTCACCAAACACTGCTTTGGTTTTGCCATTTACTCTGGTAAAAATAAGCACAATTTGTAAAGGGTTACTCTTGTACTCCTGAATACAGAAATTACATGAGTAAAAGTTCCATATTG
>NM_023093.1
GTCGTCCGGAGGCTGCGGCTGCAGAAGATCTCTCCAAGAAGCTGCAAGGATGCTGTCCGTGCGCATCGCCGCGGCCGTGGCCCGTGCCCTCCCTCGACGGGCGGGACTGGTCTCCAAAAATGCCTTGGGGTCATCTTTTGTTGGTACAAGAAATCTCCATGCCTCTAACACTCGACTTCAGAAGACTGGCACTGCCGAGATGTCCTCCATTCTCGAGGAGCGGATCCTTGGAGCTGATACTTCTGTTGACCTTGAAGAGACTGGCCGTGTCTTAAGCATTGGTGATGGTATTGCCCGAGTGCATGGACTGAGGAACGTTCAAGCTGAGGAGATGGTAGAGTTTTCTTCCGGCTTAAAGGGTATGTCCCTGAACTTGGAACCCGACAATGTTGGAGTTGTCGTGTTTGGGAATGACAAGCTAATTAAAGAAGGTGATATCGTGAAGAGAACAGGAGCCATCGTGGACGTTCCAGTTGGCGATGAACTGTTGGGCCGTGTAGTTGATGCCCTGGGAAATGCCATTGATGGGAAGGGTCCAGTTGGTTCCAAGATTCGCAGACGAGTGGGCCTGAAAGCCCCTGGAATTATCCCCCGAATCTCTGTGCGGGAACCAATGCAGACGGGCATCAAGGCTGTGGATAGCCTGGTGCCGATTGGCCGAGGTCAGCGTGAGCTGATTATTGGAGACAGACAGACCGGGAAAACCTCGATTGCTATTGACACAATCATCAACCAGAAGCGTTTCAATGATGGGACTGACGAGAAGAAGAAACTGTACTGCATCTACGTTGCTATTGGTCAGAAACGGTCCACCGTTGCTCAGTTGGTGAAGAGACTGACAGACGCAGATGCCATGAAGTACACCATTGTGGTGTCAGCCACTGCCTCTGATGCTGCCCCGCTTCAGTACTTGGCTCCTTACTCCGGCTGCTCCATGGGAGAGTATTTCCGAGATAATGGCAAGCACGCTCTGATCATCTATGACGACTTATCCAAGCAGGCTGTTGCTTACCGCCAGATGTCTCTGCTGCTCCGCCGACCCCCGGGTCGAGAGGCCTATCCCGGTGATGTGTTTTACCTACACTCTCGCCTGCTGGAGAGAGCAGCCAAGATGAACGATTCCTTTGGTGGTGGCTCTTTGACTGCCTTACCAGTCATTGAAACACAGGCTGGTGATGTGTCCGCCTACATTCCAACAAACGTTATTTCCATCACCGATGGACAGATCTTCTTGGAAACAGAATTGTTCTATAAAGGCATCCGCCCTGCCATTAATGTGGGCTTGTCTGTGTCCCGTGTCGGATCTGCCGCCCAGACCAGAGCCATGAAGCAGGTGGCAGGCACCATGAAGCTGGAGTTGGCCCAGTACCGGGAGGTCGCTGCTTTTGCCCAGTTTGGTTCTGATCTGGATGCTGCCACTCAGCAGCTCTTGAGCCGTGGCGTGCGCCTGACCGAGCTGCTAAAGCAAGGACAGTACTCTCCCATGGCTATTGAAGAACAGGTGGCTGTCATCTATGCAGGCGTCCGGGGTTATCTTGATAAACTGGAGCCCAGTAAGATCACAAAGTTCGAGAGTGCTTTCTTGTCTCATGTTGTGAGCCAGCACCAGAGCCTCTTGGGCAATATCAGGTCTGATGGGAAAATCTCAGAACAGTCGGATGCAAAGCTGAAGGAAATCGTAACAAACTTCTTGGCTGGGTTTGAACGGTAAAGCCCTGCCACTGTCACCAGAAACTGCATTTGGGATTTGTCATTTATTGCGGTAAAATCAGCCACCATTTGTACAAGGGAGTTTACCTTGTACTCCTGATGTACAGAAATACATTTGAATTCAAAAGTTCCATATTG

Publications

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