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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name RPS10P16
Plot displaying the genomic locations of a retrocopy (in chr8) and its respective parental gene (in chr6). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr8:117523216-117523726  UCSC
Coordinates (T2T) chr8:118651367-118651877  UCSC
Coordinates (hg19) chr8:118535455-118535965  UCSC
Strand -
Parental Sequence NM_001204091.2
Parental seq. overlap 488 bp
Parental seq. overlap (%) 82.4%
Genomic Region Intragenic (MED30)
Retrocopy Summary RPS10P16, located on chr8:117523216-117523726, is a retrocopy of the parental gene RPS10. 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 RPS10
Full Name ribosomal protein S10
Also known as DBA9|S10
Coordinate chr6:34417454-34426069
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 S10E family of ribosomal proteins. It is located in the cytoplasm. Variable expression of this gene in colorectal cancers compared to adjacent normal tissues has been observed, although no correlation between the level of expression and the severity of the disease has been found. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. Alternate splicing results in multiple transcript variants that encode the same protein. Naturally occurring read-through transcription occurs between this locus and the neighboring locus NUDT3 (nudix (nucleoside diphosphate linked moiety X)-type motif 3).[provided by RefSeq, Feb 2011]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes LOC104001113P12
Bonobo Pan paniscus RPS10P15
Gorilla Gorilla gorilla LOC109025084P16
Orangutan Pongo abelii LOC100439704P13
Gibbon Nomascus leucogenys RPS10P24
Green monkey Chlorocebus sabaeus LOC103223049P2
Crab-eating macaque Macaca fascicularis LOC102136572P3
Rhesus Macaca mulatta RPS10P17
Baboon Papio anubis LOC101019076P3
Golden snub-nosed monkey Rhinopithecus roxellana RPS10P17
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

>RPS10P16
TATGAACTCCTTTTTAAGGAGGGAATCATGGTGGCCAAGGAGGATTCCACATGCCTAAGCACCCGGAGCTGGCAGACAAGAATGTGTCCAACCTTCATGTCATGAAGGCCATGCAGTTTCTCAAGTCCTGAGGCTACGTGAAGGAACAGTTTGCCTGGAGACATTTCTACTGGTACCTTACCAATGAGGGTATCCAGTATCTCTGTGATTACCTTCATCTGCCCCCGGAGATTGTTCCTGCCACCCTACGCCGCAGCCGTCCAGAGACTGGCAGGCCTCAGCCTAAAGGTCTGGAGGGTGAGCGACCTGCAAGACTCACAAGAGGGGAAGCCGACAGAGATACCTACAGACGGAGTGCTGTGCCCCCTGGTGCCGACAAGAAAGCCGAGACTGGGGCTGGGTCAACAACCGAATTCCAGTTTAGAGGCGGATTTGGTCGTGGACATGGTCAGCCACCTCAGTAAAATTGGAGAGGATTATTTTGCATTGAATAAACTTACAGACa
>NM_001204091.2
CCTTTCCAGCCCCGGTACCGGACCCTGCAGCCGCAGAGGTGAATGTTGATGCCTAAGAAGAACCGGATTGCCATTTATGAACTCCTTTTTAAGGAGGGAGTCATGGTGGCCAAGAAGGATGTCCACATGCCTAAGCACCCGGAGCTGGCAGACAAGAATGTGCCCAACCTTCATGTCATGAAGGCCATGCAGTCTCTCAAGTCCCGAGGCTACGTGAAGGAACAGTTTGCCTGGAGACATTTCTACTGGTACCTTACCAATGAGGGTATCCAGTATCTCCGTGATTACCTTCATCTGCCCCCGGAGATTGTGCCTGCCACCCTACGCCGTAGCCGTCCAGAGACTGGCAGGCCTCGGCCTAAAGGTCTGGAGGGTGAGCGACCTGCGAGACTCACAAGAGGGGAAGCTGACAGAGATACCTACAGACGGAGTGCTGTGCCACCTGGTGCCGACAAGAAAGCCGAGGCTGGGGCTGGGTCAGCAACCGAATTCCAGTTTAGAGGCGGATTTGGTCGTGGACGTGGTCAGCCACCTCAGTAAAATTGGAGAGGATTCTTTTGCATTGAATAAACTTACAGCCAAAAAACCTTAA

Publications

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