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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name GABARAPL2P1
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Plot displaying the genomic locations of a retrocopy (in chr5) and its respective parental gene (in chr16). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr5:79229882-79230643  UCSC
Coordinates (T2T) chr5:79714116-79714877  UCSC
Coordinates (hg19) chr5:78525705-78526466  UCSC
Strand +
Parental Sequence NM_007285.7
Parental seq. overlap 369 bp
Parental seq. overlap (%) 36.7%
Genomic Region Intergenic
Retrocopy Summary GABARAPL2P1, located on chr5:79229882-79230643, is a retrocopy of the parental gene GABARAPL2. 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 GABARAPL2
Full Name GABA type A receptor associated protein like 2
Also known as ATG8|ATG8C|GATE-16|GATE16|GEF-2|GEF2
Coordinate chr16:75566379-75577881
Strand +
Gene summary Enables ubiquitin protein ligase binding activity. Involved in negative regulation of proteasomal protein catabolic process and protein localization to endoplasmic reticulum. Located in Golgi membrane and autophagosome membrane. [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes GABARAPL2P1
Bonobo Pan paniscus GABARAPL2P1
Gorilla Gorilla gorilla GABARAPL2P2
Orangutan Pongo abelii GABARAPL2P1
Gibbon Nomascus leucogenys GABARAPL2P1
Crab-eating macaque Macaca fascicularis GABARAPL2P1
Rhesus Macaca mulatta GABARAPL2P1
Golden snub-nosed monkey Rhinopithecus roxellana GABARAPL2P1
Marmoset Callithrix jacchus GABARAPL2P1
Green monkey Chlorocebus sabaeus Without Homology
Baboon Papio anubis 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

The Genotype-Tissue Expression project - (GTEx)

Massive Mining of Publicly Available RNA-seq Data from Human and Mouse - (ARCHS4)

Related Sequence

>GABARAPL2P1
TGTCCCCTCCCTGCCACCACCCTGAAGTGGATGTTCAAGGAGAACCACTCGCTAGAAAACAGATGCGTGCAGTTCCCGAAGATCAGAGTAAAATATCCTGACCGGGTTCCGGTGATTGTGGAAAAAAAAAGTCTCAGGCTCTCAGATTGTTGACACTGACAAACGGAAGAACTTGGTTCCATCTGACAGCCATTCAGTTCCATCTGTGGCTCAGTTCTTGTGGATCATCACAAAAAGGATCCATCTTCCTTCTGAAAAGGCATCTTCTGTTTGTGGATAAAACAGTCCAGCCTGGTGAccaaaaaacaGTCCAGCCTAACTATAGGAGAGCTTTACTAGAAGGAAAAAGATACAGATGGAATCTTGTATGTGGCCTCCAGTGGGGAGAACACTTTTGGTTTCCGAGGACCACTGCTGTGCTAGGTGCACCCTTACTGCTTGTGTAT
>NM_007285.7
agtcgccgccgtcgctgccgctgccgctgccgccgtcgttgttgttgtgctcggtgcgctgagctccgcggctccgcgagccggttccgtccccttcccgccgccgcCATGAAGTGGATGTTCAAGGAGGACCACTCGCTGGAACACAGATGCGTGGAGTCCGCGAAGATTCGAGCGAAATATCCCGACAGGGTTCCGGTGATTGTGGAAAAGGTCTCAGGCTCTCAGATTGTTGACATTGACAAACGGAAGTACTTGGTTCCATCTGATATCACTGTGGCTCAGTTCATGTGGATCATCAGGAAAAGGATCCAGCTTCCTTCTGAAAAGGCGATCTTCCTGTTTGTGGATAAGACAGTCCCACAGTCCAGCCTAACTATGGGACAGCTTTACGAGAAGGAAAAAGATGAAGATGGATTCTTATATGTGGCCTACAGCGGAGAGAACACTTTTGGCTTCTGAGGGCCATTGCTGGGCTAGGTGCACCGTAACTGCTTGTGTATCTTGTAAATAGCCAGCCATTTTCAGTTATTATACCAGAACCTCTTCACATAGACCTATTAGTGCATTTGTAACTGGATTTATTTCTTAATATATTGGAAGGTTTTGTTTCCTTAGACTAGTAAATTATCATACAGAGTTTTATTTTGAGTTTTTCTTTTTGTGCATTGTCCTCATGCCTGTATTCTCCAGGAAACTTGTCCTTCTGGAAATCATATTGAATGATATTTCTATATCGAAGTGAGGTAGGTGCGGTATTAAAGTGAAAGGGAAGGTGATGCATTTATTCTGGGTTATGCTTGAAGTGTTAGATGGCTAAGTATTAAAATTATCCAAATTAAATCCTTAGCAGTCAGAACACTTGCTTCACTAGAATATGCCAACTGCCAATCATGTTGGACTGAGCTAATTTGTTCCTCTTTCTGAAACTATTAAGGTAAATAATTAACAATAAAAATTCTCTTATAAAGGCA

Publications

PMID - Link Title
No publications available for this retrocopy