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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name RPS12P38
Plot displaying the genomic locations of a retrocopy (in chr6) and its respective parental gene (in chr6). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr6:35070849-35071049  UCSC
Coordinates (T2T) chr6:34893641-34893841  UCSC
Coordinates (hg19) chr6:35038626-35038826  UCSC
Strand -
Parental Sequence NM_001016.4
Parental seq. overlap 190 bp
Parental seq. overlap (%) 37.8%
Genomic Region Intragenic (ANKS1A)
Retrocopy Summary RPS12P38, located on chr6:35070849-35071049, is a retrocopy of the parental gene RPS12. 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 RPS12
Full Name ribosomal protein S12
Also known as S12
Coordinate chr6:132814569-132817564
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 S12E family of ribosomal proteins. It is located in the cytoplasm. Increased expression of this gene in colorectal cancers compared to matched normal colonic mucosa 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 RPS12P13
Bonobo Pan paniscus RPS12P14
Gorilla Gorilla gorilla RPS12P15
Orangutan Pongo abelii RPS12P12
Gibbon Nomascus leucogenys RPS12P30
Green monkey Chlorocebus sabaeus RPS12P28
Crab-eating macaque Macaca fascicularis RPS12P6
Rhesus Macaca mulatta RPS12P5
Baboon Papio anubis RPS12P12
Golden snub-nosed monkey Rhinopithecus roxellana RPS12P12
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

>RPS12P38
CAAATCAACCTAAGTAAGGTTGATGACAACAAGAAACTAGGGGAATGGGCAGGCCTCTGTAAAATAGACAGAGAGGGGAAACCCTGGAAAGTGGTTGGTTGCAGTTGTGTAGTAGTTAAGGACTATGGCAAGGAGTCTCAGGCCAAGGATGTCATCGAAGAGTCCTTCAAATGCAAGAAATGAAGAAATAAATCTTTGGCG
>NM_001016.4
CTCTTTCCCTGCCGCCGCCGAGTCGCGCGGAGGCGGAGGCTTGGGTGCGTTCAAGATTCAACTTCACCCGTAACCCACCGCCATGGCCGAGGAAGGCATTGCTGCTGGAGGTGTAATGGACGTTAATACTGCTTTACAAGAGGTTCTGAAGACTGCCCTCATCCACGATGGCCTAGCACGTGGAATTCGCGAAGCTGCCAAAGCCTTAGACAAGCGCCAAGCCCATCTTTGTGTGCTTGCATCCAACTGTGATGAGCCTATGTATGTCAAGTTGGTGGAGGCCCTTTGTGCTGAACACCAAATCAACCTAATTAAGGTTGATGACAACAAGAAACTAGGAGAATGGGTAGGCCTTTGTAAAATTGACAGAGAGGGGAAACCCCGTAAAGTGGTTGGTTGCAGTTGTGTAGTAGTTAAGGACTATGGCAAGGAGTCTCAGGCCAAGGATGTCATTGAAGAGTATTTCAAATGCAAGAAATGAAGAAATAAATCTTTGGCTCACA

Publications

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