Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name RPS3P9
Plot displaying the genomic locations of a retrocopy (in chr5) and its respective parental gene (in chr11). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr5:73152002-73152985  UCSC
Coordinates (T2T) chr5:73633339-73634322  UCSC
Coordinates (hg19) chr5:72447829-72448812  UCSC
Strand -
Parental Sequence NM_001005.5
Parental seq. overlap 798 bp
Parental seq. overlap (%) 38.3%
Genomic Region Intergenic
Retrocopy Summary RPS3P9, located on chr5:73152002-73152985, is a retrocopy of the parental gene RPS3. 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 RPS3
Full Name ribosomal protein S3
Also known as S3
Coordinate chr11:75399518-75422302
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, where it forms part of the domain where translation is initiated. The protein belongs to the S3P family of ribosomal proteins. Studies of the mouse and rat proteins have demonstrated that the protein has an extraribosomal role as an endonuclease involved in the repair of UV-induced DNA damage. The protein appears to be located in both the cytoplasm and nucleus but not in the nucleolus. Higher levels of expression of this gene in colon adenocarcinomas and adenomatous polyps compared to adjacent normal colonic mucosa have been observed. This gene is co-transcribed with the small nucleolar RNA genes U15A and U15B, which are located in its first and fifth introns, respectively. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. Multiple alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2012]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes RPS3P2
Bonobo Pan paniscus RPS3P2
Gorilla Gorilla gorilla RPS3P7
Orangutan Pongo abelii RPS3P2
Gibbon Nomascus leucogenys RPS3P9
Green monkey Chlorocebus sabaeus RPS3P3
Crab-eating macaque Macaca fascicularis RPS3P4
Rhesus Macaca mulatta RPS3P4
Baboon Papio anubis RPS3P2
Golden snub-nosed monkey Rhinopithecus roxellana RPS3P1
Marmoset Callithrix jacchus RPS3P2
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

>RPS3P9
AAATCATAATCTTAGCCACCAAAACACAGAATGTTCTTGGTGAGAAGGGCTGGCAGATTTGGAAATTGCCTGCTGTAGTTCAGAAGAGGTTTGGCTTCCAGAGGGCAGTGTAGAGCTTTTTGCTGGAAAGGTAGCCACAAGAGGTATGTGTGTGTTTGCCTAGGTGGAGTCTCAGTGTTACCTCCTGGGAGGGCTTGCAGCGCAGAGGGCCTGCTGTGGTGTGCTGTGGTTCATCAGGCGGGGCGTAGGGGGCCACAGGCTTCAAGGCTGTGGTGTCTGAAAACTCTAAATGCAGGAAGTTTGTGGATGACCTGATGATCCTCAGCAGGAACTCTGTTTACCTCATTGACACCGCCATGTGCCAGGTGCTGCTCCAACAGGGTGTGCTGGCCATCAAGGGAAGGTCATGCTGCCCTGGGACCCAGCTGGTAAGACTGACTCTAGGAAGGCCCTGCCTGAGCACATGAGTATCGTGGAACCCAAAGATGAAGTACTGCCCACTACCCCATCTCAGAATAGAAGGGTGGGGAGGAAGCCATAGCTCCTGCCATGCCGCAGCCAACCCCCACAACATGACAGGTTCTCCTTGACAGCTGTGTCTGGCATCTGGATGTTGTCCTGGAAAGGCCTTTAATAAAATCTTGTACAAAGGCACAAAGCCTGACTCGACTGTATGTCCAGTGTTCAGACTGAGGGGCATGTTGGCCTGCAGAGCATTCCTTGACCTCTTGGTTAAGGAATTTGCAGGGCCCAGCACGGGAGGACCCAAGCAGAGCTAACCAGAGGAATGTCCCATGTGAGAGTGAAGGCTGATGGCTAGCAGGGCAGCACCTCAATTAACTGTTCTGTAATTCAGGATTGTAGCTTTAGAAGGGGGATATATTTAGAATGATTTTTCCTATGCCTAAGGAAATACGCATTGCACATAGAAAGTAAATACAATGGCCATTAt
>NM_001005.5
CCTTTCCTTTCAGCGGAGCGCGGCGGCAAGATGGCAGTGCAAATATCCAAGAAGAGGAAGTTTGTCGCTGATGGCATCTTCAAAGCTGAACTGAATGAGTTTCTTACTCGGGAGCTGGCTGAAGATGGCTACTCTGGAGTTGAGGTGCGAGTTACACCAACCAGGACAGAAATCATTATCTTAGCCACCAGAACACAGAATGTTCTTGGTGAGAAGGGCCGGCGGATTCGGGAACTGACTGCTGTAGTTCAGAAGAGGTTTGGCTTTCCAGAGGGCAGTGTAGAGCTTTATGCTGAAAAGGTGGCCACTAGAGGTCTGTGTGCCATTGCCCAGGCAGAGTCTCTGCGTTACAAACTCCTAGGAGGGCTTGCTGTGCGGAGGGCCTGCTATGGTGTGCTGCGGTTCATCATGGAGAGTGGGGCCAAAGGCTGCGAGGTTGTGGTGTCTGGGAAACTCCGAGGACAGAGGGCTAAATCCATGAAGTTTGTGGATGGCCTGATGATCCACAGCGGAGACCCTGTTAACTACTACGTTGACACTGCTGTGCGCCACGTGTTGCTCAGACAGGGTGTGCTGGGCATCAAGGTGAAGATCATGCTGCCCTGGGACCCAACTGGTAAGATTGGCCCTAAGAAGCCCCTGCCTGACCACGTGAGCATTGTGGAACCCAAAGATGAGATACTGCCCACCACCCCCATCTCAGAACAGAAGGGTGGGAAGCCAGAGCCGCCTGCCATGCCCCAGCCAGTCCCCACAGCATAACAGGGTCTCCTTGGCAGCTGTATTCTGGAGTCTGGATGTTGCTCTCTAAAGACCTTTAATAAAATTTTGTACAAAGACACAAGGTCTGACTAGACTGTTCAGTATTCAGACTGAGGGGCATGTTGGCCTCTGGAGCATTACATATCTTCTTGGTTTTAACCATACTTGTGGTATTTGCAAGGGCCAGAACAGTAAGACCCAAGCAGAGCCAACCAGAGAAATAATATTTGTGTGATAGAGAAGGCTGATAGCAAGCAAGGCAGCACCTTGATTCGTTGTCCTGTAGTTCAGGATTGTAGGTTTAGAAGAGGGATATGTTTGAGTTTTTCCTATGCATAAGGCGATCCACGTTGCACATAGAAAGTGAATATAAATGGCCATTATATTTTGTGTCATGCTGTGCTCTAAGTGTTCTTTACATATGTACTCGTTAATCAACCTCTCTAAAGTGTAAAGGAAATTTGCTTGCACCACTGAAGGCACATAAGGCTCAGAAGTAAATTTGCCTAAGCAGTATAAAGCTATCATTAGAATCCACATTCCTAAGTTGTGTTCTCTTAGGGGATCATGGAACCAGTCATTGGTACTACAGGCTATTATGTTCTGGAGAACTGTGAAGAACATTTAAATTGTCTCTGATTTTATCTATCAATGTTTTGAAGTATTTTCTACCAGTGTCTGTACTTCACAAGAAATTCGGCACTATTTTTTCAGGCAAAACTAGTGAGGGACAGGTTGGCTTGAAAATCATGAGACTGTTGTTAAATCAGATGCTGGTTGATCACAGAGGGGACTTCCAGGGAAAGCTGTTATCAGGTGGCTGCTTCCTGGTGATGCAGCCTGGCTGATGAGATAACCCTGGCTCCACAGATGGCTTAGCAGGTGCTGTGATGATTTGGTTTTCTTCTCAATTAGACTGAGCTGCACATGGTGTTTATATTGCTTGGCACATGGTAAGGGCTTAATATTTGAGGTAATTATGTAGGGCGTACACTGACAAGTATCTGACCCCCCCTTCCTTTTTGACTCATaaattggtcatcttaaccatttaagtgtacacttctatagtgacagagttagccctctgtccaagggatttgcatctgtggattcaaccaactttgggtcaaaaataatcaaaaaggatggttgtgtgtgtattgaacatgtagacttatttttcttattttcaaaatactatattttcttgtcacttattttcttgtacactgcagttgtaacagctatgtagcatgtacattaggtattaaaagtaatccagtgaagattgaaa

Publications

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