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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name Ssu72P1
Plot displaying the genomic locations of a retrocopy (in chr14) and its respective parental gene (in chr4). Each line represents a retrocopy.
Species Mus musculus
Coordinates chr14:124222486-124223229  UCSC
Strand -
Parental Sequence NM_026899.3
Parental seq. overlap 668 bp
Parental seq. overlap (%) 45.8%
Genomic Region Intragenic (Fgf14)
Retrocopy Summary Ssu72P1, located on chr14:124222486-124223229, is a retrocopy of the parental gene Ssu72. 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 Ssu72
Full Name Ssu72 RNA polymerase II CTD phosphatase homolog (yeast)
Also known as 1190002E22Rik|1500011L16Rik|2610101M12Rik
Coordinate chr4:155789272-155818336
Strand +
Gene summary Predicted to enable RNA polymerase II CTD heptapeptide repeat phosphatase activity. Predicted to be involved in dephosphorylation of RNA polymerase II C-terminal domain; mRNA polyadenylation; and termination of RNA polymerase II transcription. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Is expressed in facial ganglion; trigeminal ganglion; and vestibulo-cochlear ganglion. Orthologous to human SSU72 (SSU72 homolog, RNA polymerase II CTD phosphatase). [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Rat Rattus norvegicus Ssu72P1
Human Homo sapiens Without Homology
Chimpanzee Pan troglodytes Without Homology
Bonobo Pan paniscus Without Homology
Gorilla Gorilla gorilla Without Homology
Orangutan Pongo abelii Without Homology
Gibbon Nomascus leucogenys Without Homology
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
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

>Ssu72P1
GGTGGTATGCTCAAGTAAACAGATTCAGAGCATGAAAGCACACGTCATCCTCAGCAACTGTCATTTCAGTGTCTGTTCCTTTGGAACAGGAACTATTGATGTTCCCAGGACCAGCAACTGACAAGTCCAATGTTTATGATTTCAAAACTATATATGACCAGAATGTACAATGATCTCCTCAGGAAAGACAAAGAACTCTATACACAAAATGGAATTTTACATATGTTGGatagaaataaaagaatcaaGCCCCACCCAGAAAGGTTCCAGAACTTCACAGACCTGTTTGACCTGATCTTCACATGTGAAGAGAATCTCTGACGAGGTTGTAGCAGATTTGAGCTCCAGAGATCAGGAGTCCTGCTAGCCAGTGCATGTGATCAATGTGGACATCCAGGACAAGCATGAGAGGCCACTCTAGGAGCATTCCTTTCTGTGAGCTCTGCCAGTGTATCCAGCACACCAAGGATATAGATAATGAAATCGACGAGAGCAGGAGTTCGAGAAGAGTGGCTGGGCCTTTCTGCATACTGTTTGCTTCTACTGAGCCACCTGTATTTGGTGCATGGCCCTCACCTTTGTTGTAGACACTATTTCAGTGTGTTTTCCCTTCTGATATTTGTTTATACTGCTAGGTGTACATAACCAATGTACTGAACATAAGGAATGAGTAGTACATAGAAATGCCAGAttcaaatccattgtttttaaccaaaagaaataaaaaatggtttATTCTACAGT
>NM_026899.3
CTAGAAGTCCAGTGACTCTGAGGAAGGTACTCGTGATAGAGATAGGGCACAAACCAAGTGCTGGAGCCCAGTGCATCTATGAAATTGGCAGAGTGACCACCTGGAGGAAACCGGAATGAAAAACGTCCCAACCACACCAAGAGAAGCCGCGGAAAGGACTTGAGACTCCCCGGACCCGCCCCAACGCCCGTCCCACTGAAGTTTTCAGTATTGCGCAAGCGCCGCGCCTAGCGCGTCATCCGAGGCGACGGTACATTAGGACGCAGGCGCGGCTCACACCGCTCCAGTTGCCGGCGCAGGTCCTGTGACGTCACGCGCCGGCGAAGGTGGTCCACGACCGCCGGCCTCGGCTGCTCTCAGGCTGATTCGGCGTCGGCCGGTCGCCCTCCCGCGCCGGCTGCAGTACGAGCCCAGGAGAGCACCGTCGGCCTCCCCACGCGTTGCGTTGCGTTGCGTTGCGTTCACTTCCGTGTCGCAGATTTCCGGTTACCGCCATCTTCCTCGCGCGGAAGCCGGCTTCTAGGTGGGAGCTCCGTAGCGAGAGCAGTGGGTAGTTCGGTCGGTGCCATGCCGTCATCGCCGCTGCGGGTGGCGGTGGTGTGCTCGAGTAACCAGAATCGGAGCATGGAAGCACACAACATCCTCAGCAAGCGAGGTTTCAGTGTCCGCTCCTTTGGAACAGGAACTCATGTGAAGCTCCCAGGACCAGCACCTGACAAGCCCAATGTTTATGACTTCAAAACCACATATGACCAGATGTACAATGACCTCCTCAGGAAAGACAAAGAACTCTATACACAAAATGGAATTTTACATATGTTGGACAGAAATAAAAGGATCAAGCCCCGTCCAGAAAGGTTCCAGAACTGCACGGACCTGTTTGACTTGATCCTCACTTGTGAAGAGAGAGTCTATGACCAGGTTGTAGAAGATCTGAACTCCAGAGAACAGGAGACCTGCCAGCCAGTGCATGTGGTCAATGTGGACATCCAGGACAACCATGAAGAGGCCACTCTGGGAGCATTCCTTATCTGCGAGCTCTGCCAGTGTATCCAGCACACTGAGGACATGGAGAATGAAATCGACGAGCTGCTGCAGGAGTTCGAGGAGAAGAGTGGCCGGGCCTTTCTGCATACTGTCTGCTTCTACTGAGCCTCCTGTGCTCGGTGCATGGCCTGCCCTGCACAGCCACCTTTGTTGAAGCCACTTTTTCAGTGTGTTTTCCTTTCAGATATTTGTTTTTACTGCTAGGTGTACATCATCAATGTACTGTACATATGGAATGAGACGTACGCAGAAATGCCAGAttcaaatccattgtttttaaccaaaagaaataaagatggtTTACTCTACAGCCTACAGCAAGTGTCTGTTGTTGGCCCTTTTCTCTCCACTGCTGAATTGTACAGAAACCTAAATAAAGCAACAGGCTGTCttattaaggggaaaaaaaa

Publications

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