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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name ATP5MC1P3
Plot displaying the genomic locations of a retrocopy (in chr3) and its respective parental gene (in chr17). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr3:138889162-138890007  UCSC
Coordinates (T2T) chr3:141630140-141630985  UCSC
Coordinates (hg19) chr3:138608004-138608849  UCSC
Strand -
Parental Sequence NM_005175.3
Parental seq. overlap 307 bp
Parental seq. overlap (%) 36.3%
Genomic Region Intergenic
Retrocopy Summary ATP5MC1P3, located on chr3:138889162-138890007, is a retrocopy of the parental gene ATP5MC1. 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 ATP5MC1
Full Name ATP synthase membrane subunit c locus 1
Also known as ATP5A|ATP5G|ATP5G1
Coordinate chr17:48892787-48895871
Strand +
Gene summary This gene encodes a subunit of mitochondrial ATP synthase. Mitochondrial ATP synthase catalyzes ATP synthesis, utilizing an electrochemical gradient of protons across the inner membrane during oxidative phosphorylation. ATP synthase is composed of two linked multi-subunit complexes: the soluble catalytic core, F1, and the membrane-spanning component, Fo, comprising the proton channel. The catalytic portion of mitochondrial ATP synthase consists of 5 different subunits (alpha, beta, gamma, delta, and epsilon) assembled with a stoichiometry of 3 alpha, 3 beta, and a single representative of the other 3. The proton channel seems to have nine subunits (a, b, c, d, e, f, g, F6 and 8). This gene is one of three genes that encode subunit c of the proton channel. Each of the three genes have distinct mitochondrial import sequences but encode the identical mature protein. Alternatively spliced transcript variants encoding the same protein have been identified. [provided by RefSeq, Jul 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes ATP5MC1P1
Bonobo Pan paniscus ATP5MC1P1
Gorilla Gorilla gorilla ATP5MC1P1
Orangutan Pongo abelii ATP5MC1P1
Gibbon Nomascus leucogenys ATP5MC1P3
Green monkey Chlorocebus sabaeus ATP5G1P10
Rhesus Macaca mulatta ATP5MC1P2
Baboon Papio anubis ATP5MC1P3
Golden snub-nosed monkey Rhinopithecus roxellana ATP5MC1P2
Crab-eating macaque Macaca fascicularis 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
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

>ATP5MC1P3
CACGATTGTAACTGGCTCAGGGGCTGGCATAGCAATGGTGTCTGGCAACTTGATCATTCACTATGCCATCAGCCCATCTCTCAAGGAACAGCTCTTCTATGCCATTCTGGACTTTGCCCTATCTGAGGCCATGGGACTCTTCTGTTTGACAGTCACCTTCCTCATCCTCTTTGCCATGTGAAGCTCCATGGGGGTCACCTACTCACCCTTGCTGCTACAACTCCATAACATTCCTGGTGCTGGCATGTGCTGAGTTTTACCATTAAACACGGCTGTGGGCCAAGCTGGAGATGCAGGGCAGTGGGAGTGCAGACTGAAAAAATGCAGACCCCTGGGGCACTACTCATTTCTCAGGCTCTGATCTGCTGTAGTACTAGGGGTTTACTCAGGTCTGTGTCTGCCTCCTTTCTGAATAGGCCAAATAATTTATCCAAACAGCTTTCCTACGGCAGCTCTCCGCTCCACGTGGCCAGATAGGAGTTCCAGACCAGTGTTGTCTCCTGGGACATTGACACAGCAGCCAAGTTTATTGATGCTGGGGCAATCACAATTGGTTGGTTGGt
>NM_005175.3
AGGACACGTGGGTGGGGGAAGCTGAGCGCTGAGACCAAGGGCTAAAGCTGGGAGGTGAGTCTGTCACCTTGAGCCGGGCGAGCGCTGTGGGCCAAGCAGGGGTTGCAGGGTAGTAGGAGTGCAGACTGAAAAAATGCAGACCGCCGGGGCATTATTCATTTCTCCAGCTCTGATCCGCTGTTGTACCAGGGGTCTAATCAGGCCTGTGTCTGCCTCCTTCTTGAATAGCCCAGTGAATTCATCTAAACAGCCTTCCTACAGCAACTTCCCACTCCAGGTGGCCAGACGGGAGTTCCAGACCAGTGTTGTCTCCCGGGACATTGACACAGCAGCCAAGTTTATTGGTGCTGGGGCAGCCACAGTTGGTGTGGCTGGTTCAGGGGCTGGCATTGGAACCGTGTTTGGCAGCTTGATCATTGGCTATGCCAGGAACCCGTCTCTCAAGCAGCAGCTCTTCTCCTATGCCATTCTTGGCTTTGCCCTGTCTGAGGCCATGGGGCTTTTCTGTTTGATGGTCGCCTTCCTCATCCTCTTCGCCATGTGAGGCTCCATGGGGGGGTCACCGGCCTGTTGCTACTGCAACTCCACACCATTCTTGGTGCTGGGGTGTGTTAAGCTTTACCATTAAACACAACGTTTCTCTAAA

Publications

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