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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name RPS19P3
Plot displaying the genomic locations of a retrocopy (in chr14) and its respective parental gene (in chr19). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr14:34568651-34569169  UCSC
Coordinates (T2T) chr14:28764675-28765193  UCSC
Coordinates (hg19) chr14:35037857-35038375  UCSC
Strand -
Parental Sequence NM_001022.4
Parental seq. overlap 483 bp
Parental seq. overlap (%) 23.8%
Genomic Region Intragenic (SNX6)
Retrocopy Summary RPS19P3, located on chr14:34568651-34569169, is a retrocopy of the parental gene RPS19. 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 RPS19
Full Name ribosomal protein S19
Also known as DBA|DBA1|LOH19CR1|S19|eS19
Coordinate chr19:41860255-41872925
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 S19E family of ribosomal proteins. It is located in the cytoplasm. Mutations in this gene cause Diamond-Blackfan anemia (DBA), a constitutional erythroblastopenia characterized by absent or decreased erythroid precursors, in a subset of patients. This suggests a possible extra-ribosomal function for this gene in erythropoietic differentiation and proliferation, in addition to its ribosomal function. Higher expression levels of this gene in some primary colon carcinomas compared to matched normal colon tissues has been observed. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Jul 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes RPS19P6
Bonobo Pan paniscus RPS19P6
Gorilla Gorilla gorilla RPS19P5
Orangutan Pongo abelii RPS19P6
Gibbon Nomascus leucogenys RPS19P3
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
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

>RPS19P3
CCCTTTCCCCTGGCTGGCAGTGCACAGGCCGGGCCGCATGATGCCTGGAGTTACTGTAAAAGATGTGAACCAGCAGGAGTTCATCAGAGCTCTGGCAGCCTTCCTCAGAAAGTCTGGGAAGCTGAAAGTCCCCGAATGGGTGGACACCGTCAAGCTGCTGGCCAAGCACAAAGAGCTTGCTCCCTACGATGAGAACTGGTTGTACACGCGAGCTGCTTCCACAGCGTGGCACCTGTACCTCTGGGGTGGCGCTGGGGTTGGCTCCATGACCAAGATCTATGGGGGATGTCAGAGAAGTGGCGGCATGCCTGGCCACTTTAGCCGAGGCTCCAAGAATGTGGCCCACCGGGTCCTCCAAGCCCTGGAGGGGCTAAAAATGGTGGAAAAGGACCAAGATGGGGGCCGCAAACTGACACGTCAGGGACAGAGAGATCTGGACAGAATCGCTGGACAGGTGGCAGTTGCCAACAAGAAGCATTAGAACAAACCATGCTGGGTTAATAAATTGCCTCATTCGTT
>NM_001022.4
CCCTTTCCCCTGGCTGGCAGCGCGGAGGCCGCACGATGCCTGGAGTTACTGTAAAAGACGTGAACCAGCAGGAGTTCGTCAGAGCTCTGGCAGCCTTCCTCAAAAAGTCCGGGAAGCTGAAAGTCCCCGAATGGGTGGATACCGTCAAGCTGGCCAAGCACAAAGAGCTTGCTCCCTACGATGAGAACTGGTTCTACACGCGAGCTGCTTCCACAGCGCGGCACCTGTACCTCCGGGGTGGCGCTGGGGTTGGCTCCATGACCAAGATCTATGGGGGACGTCAGAGAAACGGCGTCATGCCCAGCCACTTCAGCCGAGGCTCCAAGAGTGTGGCCCGCCGGGTCCTCCAAGCCCTGGAGGGGCTGAAAATGGTGGAAAAGGACCAAGATGGCGGCCGCAAACTGACACCTCAGGGACAAAGAGATCTGGACAGAATCGCCGGACAGGTGGCAGCTGCCAACAAGAAGCATTAGAACAAACCATGCTGGGTTAATAAATTGCCTCATTCGTAATCCTGGTCTGGGtctcttttttgagtctcttgctctgtcgcccaggctggagtgcagtggcgccatctcagctcactgcaatctccgccttctgggttcaaatgattctcctgcctcagcctcccaaagtgctgggattacaagtgtgagccactgtgcctggTCTGGTTTGGGTCTCTTGATTGTTCTTCAGGGGCATGAGGAAGAGGCGCTTCCTCCCTTCCCTTGGGTGAGGGGGCCCAGGGTGATTGGGTGGCTGTTTACCCGGCAGCCAGTCGGGCCTTCCCAGGTCAAACAGTTCCCATCTGGGTTTGGAGGAAGGACCCAGGGGCCCTTGTGGCTCACTCCCCCACATCCTGTCTTTGCAATTGTCAGAAAGTGAGAAACGAAAGGATGGCTGTGAGCTGTGACCTCAGCTGGGCCTGGGCTGCAGAGGTGGCTTCCGCTGGAGTAAAGCAAGAGGGCCCAGGGTTCATGCTCTTCCCTGGAAGGTAGAAAAGGACAGACCACCAGGGAGCCTCCACCGCAAACTGACCTGTGCTGCCTACACACTAACTTTCCTGGGCCTGGGGCCTGCACAGGCTGAATGGTCCTTGAGCCTTCACTCTGCATCTGAGCGGTCTTGGGCCCGCTGAGTGGCAGTGGCAGGAAGTCGGTGGAAGCAGATCCCTGTGCAGAAGTTGAATTACCAGGGCGGCCACACACGGGCTGCACAACCTTTGCAGTCGTGCACGGCAAGTGGGATGTGGCCTCCGCCCATGATTGGGCACCTGGTCAGGCTGGGAGATCCAAATAGCACCCAGTGGGCAGCTGTCCGACCCCTGGAGGGGCAAGCCAGGAAAGAAACTTAGGGCCCGCTGTGACCAGATGTCCCTCCCAGTTGGGAAGACTAAACTGGTTTGGCCAATATCTCCCAGGATTCCCCTGTCCAAATTATTCCTGGGATCTGACCCATTTCCtggaaaggggcgagcctgggttttgaagttcaaactagagtttaaatcacaactctgcccctaatcccacgtaaccctgtgcaccttatcctctgagccttcgtctcctcgtgtgtaaGCCTGCTAACTCCTGAGAGACTGGACAAGATGCCGTGGAGAGCCTTGGCTCTGAGTAGCTCTGCTGCTGGACAGTTCAGTTGGCAGTCCCCAAACGTAAGGCGTAAGAGTTTAAGAAGTATCggccaggcacagtggctcacacctgtaatctcaacactttgggaggccgagacgggctgatcacctgaggttgggagcttgagaacagcctgaccaacatggagaaaccctgtctctaaaaataccaaaattagttgggcatggtggcgcgcacctgtaatcccagctactcaggaggctgaggcagaagaatcgctcgaaccccggaggcggaggttgcagtgggttgagatcgagcaattgcaatccagcctgggcaacagagcgagactccatttcaaaaaaagaatcaataaaaaTGTTAAAAGCA

Publications

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