Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name C9orf78P2
Plot displaying the genomic locations of a retrocopy (in chr4) and its respective parental gene (in chr9). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr4:13977341-13978320  UCSC
Coordinates (T2T) chr4:13957035-13958014  UCSC
Coordinates (hg19) chr4:13978965-13979944  UCSC
Strand +
Parental Sequence NM_016520.3
Parental seq. overlap 821 bp
Parental seq. overlap (%) 45.2%
Genomic Region Intergenic
Retrocopy Summary C9orf78P2, located on chr4:13977341-13978320, is a retrocopy of the parental gene C9orf78. 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 C9orf78
Full Name chromosome 9 open reading frame 78
Also known as CSU2|HCA59|HSPC220|TLS1|bA409K20.3
Coordinate chr9:129827290-129835307
Strand -
Gene summary Located in cytosol and nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes C9H9orf78P2
Bonobo Pan paniscus C9H9orf78P2
Gorilla Gorilla gorilla C9H9orf78P2
Orangutan Pongo abelii C9H9orf78P2
Green monkey Chlorocebus sabaeus C12H9orf78P2
Crab-eating macaque Macaca fascicularis C15H9orf78P2
Rhesus Macaca mulatta C15H9orf78P2
Baboon Papio anubis C13H9orf78P2
Golden snub-nosed monkey Rhinopithecus roxellana C16H9orf78P2
Marmoset Callithrix jacchus C1H9orf78P1
Gibbon Nomascus leucogenys 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

>C9orf78P2
AGATCCCTTTCAGATGAAGATAGGTGATGTGGATATGAAGAAACTGaGACTTTCACTTGGGGACATCATTTTCTGCAGAAACCAACTGAAGGGATGAGGATGCAGACATGATGAAGTACACTGAGACAGAGCTAAAGAAGAGGAAAGGGATTGTGGAACATGAGGAACAGAAAGTCAAGCCAAGGAATGCAGAGGATTGTCTTTATGAACTTCCAGAAAACATCCACATTTCCTCAGCAAAGAAGACCAAGAAGATGTTTTCCAACCAGATGCTGAGTGGCATTCCTGAGTTGGACCTTGGCATCAATGCTAGAATAAAAAATATCATTTCTTCAGAGGATGCCAAGGTCCATCTGCTGGCAGAGTAGCAGAATAAGAAAAAAGACAGTAAGCTATCCTTCATGCCTACCAACATGTCTGTGAATTACGTGCAGCAGAACAGATTTTATCATGAGGAGCTCAACGTTCCCATACAGAGAAACACAGAAGAACCCAAAACCAGACTCTTGAGGGTAGGCGACACGGAGAAGCTAGGTGACACAGAGAAGGCAGAGGCTGAGAGGTCCCCTCCTAACCACAAGCATCCTGATAAGCAGAAGGCCACTGATGACTATCGTTATAAAAAGGTCAAGAAGATGAACAGGCAGTACTGAGCTGTGCAGAATGGGATGTAAATATTGCCTTCCTCTCCCTCTCTCCATTCCTCCCATGAAAAATGGCTTCCTGGACTGAGAATGCTCAGTTGCTAGCAGAGAGTTCCAGAAACAGACTCTATTAGGCCTGCTGCTTACCTGTTGGATTTTTTAAGCACTAAATTGGTAACTTTTTGAAAAAAGCAATGCATAATGTCTCATTTGGGGGCAAACTCTATTTTTGTGAACATTATTAAATCTTGTTTGTAAATACATTGACTTTCTCTTAATATTTTCTCCAGGTCAAGAAGAA
>NM_016520.3
AGCCTGGGCCGCTGCGCAGAGGCGCGGCGGCTGTACAACTCGGCCGTTGTCACCATGCCGGTCGTCCGGAAGATTTTCCGTCGCCGCCGGGGCGACTCGGAGTCAGAGGAAGATGAGCAGGACTCAGAGGAGGTTCGATTAAAACTGGAAGAGACCAGAGAGGTACAGAACTTGAGGAAGAGGCCCAACGGGGTGAGTGCTGTGGCCTTGCTGGTGGGAGAGAAGGTACAAGAGGAGACCACTCTAGTGGATGATCCCTTTCAGATGAAGACAGGTGGTATGGTGGATATGAAGAAACTGAAGGAAAGGGGCAAAGATAAGATCAGTGAGGAGGAGGACCTGCACCTGGGGACATCGTTTTCTGCAGAAACCAACCGAAGGGATGAGGATGCAGACATGATGAAGTACATTGAGACAGAGCTAAAGAAGAGGAAAGGGATCGTGGAACATGAGGAACAGAAAGTTAAGCCAAAGAATGCAGAGGACTGTCTTTATGAACTTCCAGAAAACATCCGTGTTTCCTCAGCAAAGAAGACCGAGGAGATGCTTTCCAACCAGATGCTGAGTGGCATTCCTGAGGTGGACCTGGGCATCGATGCTAAAATAAAAAATATCATTTCCACGGAGGATGCCAAGGCCCGTCTGCTGGCAGAGCAGCAGAACAAGAAGAAAGACAGCGAGACCTCCTTCGTGCCTACCAACATGGCTGTGAATTATGTGCAGCACAACAGATTTTATCATGAGGAGCTCAACGCGCCCATACGGAGAAACAAAGAAGAGCCCAAGGCCCGGCCCTTGAGAGTAGGTGACACGGAGAAGCCAGAGCCTGAGCGGTCCCCTCCTAACCGCAAGCGTCCTGCTAACGAGAAGGCAACTGATGACTATCATTATGAGAAGTTCAAGAAAATGAATAGGCGGTACTGAGTTGTGCAGAGTGGGATGTAAATATCGCCTTCCTCTCCCTATATCCCTCCCATGAAAAATGGCTTCCTggccgggcgtggtggctcctgcctgtaatcccagcactttgggaggccgaggtgggcggatcacctgaggtcgggagtttgagaccagcctgaccaacatggagaaacccagtctctactgaaaatacagaaaagttagccaggcgtggtggcacatgcctgtaatcccagctgctcaggaggctgaggcaggagaattgcttgaacccaagaggcggaggttgtggtgagccgagattgcacctttgtactccagcctgggcaacgagcaaaaaactctgtctcaaaaaaaaaaaaaaaaaaaaaaaagaaaaagaaaaaTGGCTTCCAGGACAGAGCATGCTCATTTGCTGGCGGACAGTTCCAGAAACAGACCCTGTTAGTCCTTCTACTTACCTGCTGGATTTTTCAAGCACTAAATTTATAACTTTTTGAAACAAAATAATGTGTAATTTTCCATTTGGGGGCAAACTCTATTCTTGTGAGCATTATTAAATCTTGTTTGTAAATATATTGTCTTTCTCTTAATATTTGCTCTGGGTCAGGAAGAAGCTGTTCACGGTGTGATAATACTCTTTAGATTGTGCTTTCATTATTATAGATGCATCATGTCTTCTGCTTTCACGTGTCTGGGATGGGGTCAGAAATGCATCCTCCAGCTGACAGAAAAATCCAGGATGAGATCAGAAGGATACTGGTGTTTTCTGACTTTTACAAAATTACTTGTTTGTTTTCATTAAAAAAAAAGCATAAACTATGTTTCTTATTACTATTAGAATTATTAAATTTCAAAATGAATCCAA

Publications

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