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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name PSMA7P1
Plot displaying the genomic locations of a retrocopy (in chr9) and its respective parental gene (in chr20). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr9:95653074-95653396  UCSC
Coordinates (T2T) chr9:107823771-107824093  UCSC
Coordinates (hg19) chr9:98415356-98415678  UCSC
Strand +
Parental Sequence NM_002792.4
Parental seq. overlap 234 bp
Parental seq. overlap (%) 24%
Genomic Region Intergenic
Retrocopy Summary PSMA7P1, located on chr9:95653074-95653396, is a retrocopy of the parental gene PSMA7. 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 PSMA7
Full Name proteasome 20S subunit alpha 7
Also known as C6|HEL-S-276|HSPC|RC6-1|XAPC7
Coordinate chr20:62136733-62143394
Strand -
Gene summary The 26S proteasome is a multicatalytic proteinase complex with a highly ordered structure composed of 2 complexes, a 20S core and a 19S regulator. The 20S core is composed of 4 rings of 28 non-identical subunits; 2 rings are composed of 7 alpha subunits and 2 rings are composed of 7 beta subunits. Proteasomes are distributed throughout eukaryotic cells at a high concentration and cleave peptides in an ATP/ubiquitin-dependent process in a non-lysosomal pathway. This gene encodes a member of the peptidase T1A family that functions as a 20S core alpha subunit. The encoded protein interacts with the hepatitis B virus X protein and plays a role in regulating hepatitis C virus internal ribosome entry site (IRES) activity, an activity essential for viral replication. The encoded protein also plays a role in the cellular stress response by regulating hypoxia-inducible factor-1alpha. A pseudogene of this gene is located on the long arm of chromosome 9. [provided by RefSeq, Jul 2012]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes PSMA7P1
Bonobo Pan paniscus PSMA7P1
Gorilla Gorilla gorilla PSMA7P1
Orangutan Pongo abelii PSMA7P1
Gibbon Nomascus leucogenys PSMA7P1
Green monkey Chlorocebus sabaeus PSMA7P1
Crab-eating macaque Macaca fascicularis PSMA7P1
Rhesus Macaca mulatta PSMA7P1
Baboon Papio anubis PSMA7P1
Golden snub-nosed monkey Rhinopithecus roxellana PSMA7P1
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

>PSMA7P1
CCTGACCCTTAGGCTGGTGATGAAGGCGCTCTTGGAAGTGGGTGCCTCAGGTGGTAGAAACATTGAAGTTGCTGTCACCAGGCGAGATCAATCCCTCAGGAATTTAAATCCTGAAGAAATTGAGAAATATGATGCTGAAATTCATCATGATGACTAAAATGTTCTTGCTTGTAACAATTTTTAAATTCAAATCACGGATGAGTCTACATCTACATGATGTAGGCATTTCCATTGCCTTTATTCACACCATCTGAGGGTCCTACAGTAAACTTCCATAT
>NM_002792.4
GTAGTGGCGCCGGGAGTCGCGGGTGCGCGCGGGCCGTGAGTGTGCGCTTTTGAGAGTCGCGGCGGAAGGAGCCCGGCCGCCGCCCGCCGGCATGAGCTACGACCGCGCCATCACCGTCTTCTCGCCCGACGGCCACCTCTTCCAAGTGGAGTACGCGCAGGAGGCCGTCAAGAAGGGCTCGACCGCGGTTGGTGTTCGAGGAAGAGACATTGTTGTTCTTGGTGTGGAGAAGAAGTCAGTGGCCAAACTGCAGGATGAAAGAACAGTGCGGAAGATCTGTGCTTTGGATGACAACGTCTGCATGGCCTTTGCAGGCCTCACCGCCGATGCAAGGATAGTCATCAACAGGGCCCGGGTGGAGTGCCAGAGCCACCGGCTGACTGTGGAGGACCCGGTCACTGTGGAGTACATCACCCGCTACATCGCCAGTCTGAAGCAGCGTTATACGCAGAGCAATGGGCGCAGGCCGTTTGGCATCTCTGCCCTCATCGTGGGTTTCGACTTTGATGGCACTCCTAGGCTCTATCAGACTGACCCCTCGGGCACATACCATGCCTGGAAGGCCAATGCCATAGGTCGGGGTGCCAAGTCAGTGCGCGAGTTCCTGGAGAAGAACTATACTGACGAAGCCATTGAAACAGATGATCTGACCATTAAGCTGGTGATCAAGGCACTCCTGGAAGTGGTTCAGTCAGGTGGCAAAAACATTGAACTTGCTGTCATGAGGCGAGATCAATCCCTCAAGATTTTAAATCCTGAAGAAATTGAGAAGTATGTTGCTgaaattgaaaaagaaaaagaagaaaacgaaaagaagaaacaaaagaaaGCATCATGATGAATAAAATGTCTTTGCTTGTAATTTTTAAATTCATATCAATCATGGATGAGTCTCGATGTGTAGGCCTTTCCATTCCATTTATTCACACTGAGTGTCCTACAATAAACTTCCGTATTTTTAA

Publications

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