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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name RPS15P9
Plot displaying the genomic locations of a retrocopy (in chr5) and its respective parental gene (in chr19). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr5:164600976-164601466  UCSC
Coordinates (T2T) chr5:165135845-165136335  UCSC
Coordinates (hg19) chr5:164027982-164028472  UCSC
Strand -
Parental Sequence NM_001018.5
Parental seq. overlap 433 bp
Parental seq. overlap (%) 84.2%
Genomic Region Intergenic
Retrocopy Summary RPS15P9, located on chr5:164600976-164601466, is a retrocopy of the parental gene RPS15. 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 RPS15
Full Name ribosomal protein S15
Also known as RIG|S15
Coordinate chr19:1438396-1440495
Strand +
Gene summary Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal protein that is a component of the 40S subunit. The protein belongs to the S19P family of ribosomal proteins. It is located in the cytoplasm. This gene has been found to be activated in various tumors, such as insulinomas, esophageal cancers, and colon cancers. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2015]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes RPS15P6
Orangutan Pongo abelii RPS15P4
Gibbon Nomascus leucogenys RPS15P1
Green monkey Chlorocebus sabaeus RPS15P3
Crab-eating macaque Macaca fascicularis LOC102122855P3
Rhesus Macaca mulatta RPS15P3
Golden snub-nosed monkey Rhinopithecus roxellana RPS15P2
Bonobo Pan paniscus Without Homology
Gorilla Gorilla gorilla Without Homology
Baboon Papio anubis 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

>RPS15P9
GAGGATCCGGCAAGATGGCAGAGGTAGAGGAGAAGAAGCAGCGGATCTTCCGCAAGTTCACCTACCGCGGTGTGGACCTGGGCCAGCTGCTGGACATGTCCTTTGAGCAGCTGAGGCAGCTGTACGGCGCGCGCCAGCTGCGGCGGCTGAACCACGGCCTGTGGCGGAATGCTGAGGCTCAAGCCGCATTCGCTGCTGAGGCGCCTATGCTAGGCCAAGAAGGAGGCGCCGACCATAGAGAAGCAGGAAGTGGTGAAGACGCACCTGCGGGATATGATCATCCCTCCCAAGATGGTGGGCAGCAGGGTGGGCGTCTACAACGGCAAGACCTTCAACCAGGTGGAGATCAAGCTGGAGATGATCGGCCACGACCTGGGCGAGTTCTCCATCACCTACAAGCCCGTGAAGCACGGCCGGCCTGGCATTGGGTCCACCCACTCCTCCCGCTTCATCTCCCTCAAGTAGTGGCTCCGCTAATAAAGGCACACATA
>NM_001018.5
CAAAGCGATCTCTTCTGAGGATCCGGCAAGATGGCAGAAGTAGAGCAGAAGAAGAAGCGGACCTTCCGCAAGTTCACCTACCGCGGCGTGGACCTCGACCAGCTGCTGGACATGTCCTACGAGCAGCTGATGCAGCTGTACAGTGCGCGCCAGCGGCGGCGGCTGAACCGGGGCCTGCGGCGGAAGCAGCACTCCCTGCTGAAGCGCCTGCGCAAGGCCAAGAAGGAGGCGCCGCCCATGGAGAAGCCGGAAGTGGTGAAGACGCACCTGCGGGACATGATCATCCTACCCGAGATGGTGGGCAGCATGGTGGGCGTCTACAACGGCAAGACCTTCAACCAGGTGGAGATCAAGCCCGAGATGATCGGCCACTACCTGGGCGAGTTCTCCATCACCTACAAGCCCGTAAAGCATGGCCGGCCCGGCATCGGGGCCACCCACTCCTCCCGCTTCATCCCTCTCAAGTAATGGCTCAGCTAATAAAGGCGCACATGACTCCAG

Publications

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