Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name ATG4AP1
Plot displaying the genomic locations of a retrocopy (in chrX) and its respective parental gene (in chrX). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chrX:82998661-83000208  UCSC
Coordinates (T2T) chrX:81432064-81433610  UCSC
Coordinates (hg19) chrX:82253669-82255216  UCSC
Strand +
Parental Sequence NM_052936.5
Parental seq. overlap 1176 bp
Parental seq. overlap (%) 53.2%
Genomic Region Intergenic
Retrocopy Summary ATG4AP1, located on chrX:82998661-83000208, is a retrocopy of the parental gene ATG4A. 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 ATG4A
Full Name autophagy related 4A cysteine peptidase
Also known as APG4A|AUTL2|HsAPG4A
Coordinate chrX:108091778-108154671
Strand +
Gene summary Autophagy is the process by which endogenous proteins and damaged organelles are destroyed intracellularly. Autophagy is postulated to be essential for cell homeostasis and cell remodeling during differentiation, metamorphosis, non-apoptotic cell death, and aging. Reduced levels of autophagy have been described in some malignant tumors, and a role for autophagy in controlling the unregulated cell growth linked to cancer has been proposed. This gene encodes a member of the autophagin protein family. The encoded protein is also designated as a member of the C-54 family of cysteine proteases. [provided by RefSeq, Mar 2016]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes ATG4AP1
Bonobo Pan paniscus ATG4AP1
Gorilla Gorilla gorilla ATG4AP1
Orangutan Pongo abelii ATG4AP1
Gibbon Nomascus leucogenys ATG4AP1
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
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

>ATG4AP1
GGTTGCTGGTGGAATTGGCCCAGGATGACAGCTGGAGAATGGAGTCAGTTTAATCGAACTATGAAAACCAGATTACTTCTTTCACTGAATACCTCGAAGAATATTTAGATACAGATGAGCTGGTATGGATCTTAGAAAAGCAGCATCTTATTAAAACAGAAACATCTAAGCTCTTGTCTGATATAAGTGTTTGTCTATAGTTTACATACAGAAGGAAATTTTCACCAATTTGGGGAACGGGCCCTTCATCAGATGCTGGTTGGGGATGTATGCTATGCTGTGGACAGATGATGCTGGCTCAAGCCCTTATATGTAGACACTTGGGAAAGGACTGTTATTGGGAGATTGGATCCTACAGTGCTTCTTAGAGAGAAAAAATTGTTGCTACACTATCCATCAAATGGCACAAATGCATCAAATGGCACAAACATCCATTGCACTGGCCTCGCCTTGTACCTCCAGCCAAGCCAGAAGTGACAACCACTGGGGCATAATTCATTGACTCTACTGAACAACTGGAGGAGTTTGATCTGGAGGAAATTTTGAGACTCTGAATGTGTAGAATCCCGGGATCTCAACTTGGAGGGCTGTCTTCCATCTGGCACCATAAAAACATGAACTTCTTACATAAAACTTTTCTAGTCAGTAAGTTCCTGATATACCAATAGCATACAAATTCGATAGTATTCATGACTGAGCCAATCACAGTTTCTCAGAAAAAAAAAAAAAAAATGACAGTAACCCTTTCCCAGAAAGAAATAGAACAATCGTGGAGCCTAGGAGCAGAGAGATGAGGAGTTGATTGCTTCCCAGCTTGTCTTACATGGTTACAGCAAGTCTTCAGCTTCTGTAATGAGGAGATGGACATCTGGAAAACAGGCAGCAACTCTCAGCTTGGTTTAAGAACAAGCAGATGAGAGATGGTTAAGCTGTTCTTCTTCACCCTTTCAGGTGTGACCTCTTTTCGACGAAATATTAGCAATCTGTTCTCTTGCTCAAATAATAAAGTGACCAAATCAGGGAAGAAAAAGGTTCTTGTTAAATTATTTGAATGTGTAGTTTAAGTAATTATAATTTATATCAAAACGTTTGTCAAAGAATTGATGTCAAATATTCACTCTTAATCTCCTTCCTATTTGGGGGAATCTTACTATTTGATGGGTCAGTGCCCCCATTCTTACTGATACTTTTGTCAGATATCACCTTGTCCTTAAATCAAATCATGGTCACTTAAATcAGTGACTTGAACTGTTTATTTTTGTTTGAGAAATTAAAAATAAATTGTGTTTGAA
>NM_052936.5
GTCCGTAGTCAAGTTGCCGGTGGAATTGGCCCAGGATGACAGCTGGAGAATGGAGTCAGTTTTATCCAAGTATGAAGATCAGATTACTATTTTCACTGACTACCTAGAAGAATATCCAGATACAGATGAGCTGGTATGGATCTTAGGGAAGCAGCATCTCCTTAAAACAGAAAAATCTAAGCTGTTGTCTGATATAAGTGCTCGTCTATGGTTTACATACAGAAGGAAATTTTCACCAATTGGTGGAACGGGCCCTTCATCAGATGCTGGTTGGGGATGTATGCTACGCTGTGGACAGATGATGCTGGCTCAAGCCCTTATCTGTAGACACTTGGGAAGGGACTGGAGCTGGGAGAAACAAAAAGAACAACCCAAAGAATACCAACGCATCCTACAGTGCTTCTTAGATAGAAAAGATTGTTGCTACTCTATCCATCAAATGGCACAAATGGGTGTAGGAGAAGGGAAATCAATTGGAGAATGGTTTGGACCAAATACAGTTGCACAGGTGTTAAAAAAACTTGCTTTATTTGACGAATGGAATTCCTTGGCTGTTTATGTTTCAATGGATAACACAGTGGTCATTGAAGATATCAAAAAAATGTGCCGTGTCCTTCCCTTGAGTGCTGACACAGCTGGTGACAGGCCTCCCGATTCTTTAACTGCTTCAAACCAGAGTAAGGGCACCTCTGCCTACTGCTCAGCCTGGAAACCCCTGCTGCTCATTGTGCCCCTTCGCCTGGGCATAAACCAAATCAATCCTGTCTATGTTGATGCATTCAAAGAGTGTTTTAAGATGCCACAGTCTTTAGGGGCATTAGGAGGAAAACCAAATAACGCGTATTATTTCATAGGATTCTTAGGTGACGAGCTCATCTTCTTGGACCCTCATACAACCCAGACCTTTGTTGACACTGAAGAGAATGGAACGGTTAATGACCAGACTTTCCATTGCCTGCAGTCCCCACAGCGAATGAACATCCTAAACCTGGATCCTTCAGTTGCATTGGGATTTTTCTGCAAAGAAGAAAAAGACTTTGATAACTGGTGTAGCCTTGTTCAGAAGGAAATTCTAAAGGAGAATTTAAGGATGTTTGAATTAGTTCAGAAACATCCATCACACTGGCCTCCCTTTGTACCTCCAGCCAAGCCAGAAGTGACAACCACTGGGGCAGAATTCATTGACTCTACTGAGCAACTGGAGGAGTTTGATCTGGAGGAAGATTTTGAGATTCTGAGTGTGTAGAATCCTGGGAACTCAACTTGAAGGTCTGTCTTCCATCTGGCACCATAAAAACATGAACTTATTGCATAAAACTTTTCTAGTCAGCAAGTGCCTGATATGCCAATAGCATACAAACTCAATAGCAATCATGACTGAGCCAATCACTGTTTCTCAGAAAAACAAAACAAAACAAAACAAATGACAGTAACCCTTCCCCGGAAAGAAATAGAACAATCATGGAGCCTAGGAGCAGAGAGATGAGGAGGAGTTCATTGCTTCCCAGCTTGTGTTATATGGCTACAGCAAGTCTTCAGCTGCTGCAATGAGGAAATGGGCATCTGGAAGACAAACAGCAACTCTCAGCTTGCTTCAAGAACCAGCAGATAAGAGATGGTTAAGCTGTTCTTCACCCTTTCAGATGTGACCTCTTTTGGACTAAGCAGCAATCTGTTCTCTTGCTCAAATAATAAAGTGACTGAATCAGGGAGGAAAAGGTTCTTGTTAAATTATTTGATTGTGTAGTTGAAGTAATTATAATTTATATCAAAACGTTTGTCAAAGAAACGATGTCAAATATACACTTCTTGATCTCCCTTCTGTTTGCGGGGATCTTACTATTTGATGGGTCACTGTCCCCATTCTTACTGATACTTTTGTCAGATATCACCCTGTCCTTAAATCATGATCACTTAAATcaggggtcagcaaactttttctgtaaagggccagacgggaaatattttgggctttgcaggccatgcggcctctgtcacatctactcaactctgctgttgacatgcaaaagcagcaatagacaatatgcgtgtaaatgagtgtggctgtaatccaagaaaactttatttacaaaagcaggtggagggctgggtttggcctgcaggctgtagcttgccaatcAGTGACTTAAATTGTTGATTTTTGTTTGATAAATTAAAAATAAATTGTGTTTGAAGTATACCCTA

Publications

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