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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name RPL31P3
Plot displaying the genomic locations of a retrocopy (in chr20) and its respective parental gene (in chr2). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr20:31311307-31311561  UCSC
Coordinates (T2T) chr20:33035452-33035706  UCSC
Coordinates (hg19) chr20:29899110-29899364  UCSC
Strand -
Parental Sequence NM_000993.5
Parental seq. overlap 221 bp
Parental seq. overlap (%) 17.1%
Genomic Region Intergenic
Retrocopy Summary RPL31P3, located on chr20:31311307-31311561, is a retrocopy of the parental gene RPL31. 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 RPL31
Full Name ribosomal protein L31
Also known as L31
Coordinate chr2:101002289-101019724
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 60S subunit. The protein belongs to the L31E family of ribosomal proteins. It is located in the cytoplasm. Higher levels of expression of this gene in familial adenomatous polyps compared to matched normal tissues have been observed. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. Alternatively spliced transcript variants encoding distinct isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes RPL31P58
Bonobo Pan paniscus RPL31P57
Gorilla Gorilla gorilla RPL31P55
Orangutan Pongo abelii RPL31P58
Gibbon Nomascus leucogenys RPL31P36
Green monkey Chlorocebus sabaeus RPL31P3
Crab-eating macaque Macaca fascicularis RPL31P42
Rhesus Macaca mulatta RPL31P42
Baboon Papio anubis RPL31P61
Golden snub-nosed monkey Rhinopithecus roxellana RPL31P50
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

>RPL31P3
GTGCCCCTCAGGCACTCAATGAGATCCAGAAATTTTCCATGAAGAGATGGGGTCTCCAAATGTGAGGATTGATATCAGGTTCAACAAAGCTGTTTGGGCTTAAGGAATAAAGAATGTCCTATACCATATCCATGTACAGTTGTCCAGAAAATGTAATGAGGATGAAGATTCACCAAACAAGCTCTATACTTTGGTTACCTGCGTACCTGTTACCACTTTCAAAAATCTACAGAAAGTCAATGTGGATAAGAACTG
>NM_000993.5
CTTCCTTTCCAACTTGGACGCTGCAGAATGGCTCCCGCAAAGAAGGGTGGCGAGAAGAAAAAGGGCCGTTCTGCCATCAACGAAGTGGTAACCCGAGAATACACCATCAACATTCACAAGCGCATCCATGGAGTGGGCTTCAAGAAGCGTGCACCTCGGGCACTCAAAGAGATTCGGAAATTTGCCATGAAGGAGATGGGAACTCCAGATGTGCGCATTGACACCAGGCTCAACAAAGCTGTCTGGGCCAAAGGAATAAGGAATGTGCCATACCGAATCCGTGTGCGGCTGTCCAGAAAACGTAATGAGGATGAAGATTCACCAAATAAGCTATATACTTTGGTTACCTATGTACCTGTTACCACTTTCAAAAATCTACAGACAGTCAATGTGGATGAGAACTAATCGCTGATCGTCAGATCAAATAAAGTTATAAAATTGCCTTCATGTTTTTGTTCTTTTTAGTTGCAACATAATGTACTTGTATACCCTATCCTAATTATGGGATCATTTGAAGAGCTTTTCCCAAATTGATGGCCTGTGCTGCCTTCTCCCCATCCCCTGGGGTTTTAaagtgatttcaaactgcaacctagttttagaaccactgTTCTGGGTAGTTGGGATACTGAAGGCATATTGTTAATTATTCTACTTGTATGTTTTGCTAATTCTAAGATAAGCATTTTTCCAGAAACCAGGATGTAGAATCCAGTTGCCATTGACATCTTAACATTTTAGGAAACAACTTTAAAATGAtatactatctatctatctatctGTAGCATCTTAAAGGTAATGAAATTAATGTGGCAGTAGGTCTTTTAAGCTTCTGCCTACATCCATATTGAGTATAGTTGTTGTCTTCTAAAATAATTAATTGATTTTTGGTGAGATAACCAGATTCATATTTTAAGCCTTTTGTAATGGCCCCGTGGTACCTGGAGTCAAGGTTCAGAAGTAAAAAGTTCCTTAAGGTATCAATAACAAAAATTTGTATTAATAGTTCAGTCCTAAAGCAGTGTTGCTGAGATTATGTTTCACCAGCATTTACAAGCTGTATGTTAAATGCTGCCATAAAGAGGTCTCTGAAGCCGTAGGGCACACCCAAGGCAGGGCTGAGAAGTACCTAGTAGTGTTGCACCACCCAAAAACCATGGATGGGCAGCAGCAACATCTCCAGCTTACCCATTCACTGCCACAGTCTACAGCTTAAGACACTTAACTACAAGGTAAAAGAAAAGGACCAAGTAAATACAAAAAGTTTCTTATTAAAAAACTTGGAAGCCAA

Publications

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