RCPedia: Rtcs

Summary

Retrocopy Name	PSMD14P1	Plot displaying the genomic locations of a retrocopy (in chr2) and its respective parental gene (in chr2). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr2:123762097-123763373 UCSC
Coordinates (T2T)	chr2:124199469-124200746 UCSC
Coordinates (hg19)	chr2:124519673-124520949 UCSC
Strand	+
Parental Sequence	NM_005805.6
Parental seq. overlap	1120 bp
Parental seq. overlap (%)	71.4%
Genomic Region	Intergenic
Retrocopy Summary	PSMD14P1, located on chr2:123762097-123763373, is a retrocopy of the parental gene PSMD14. 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	PSMD14
Full Name	proteasome 26S subunit, non-ATPase 14
Also known as	PAD1\|POH1\|RPN11
Coordinate	chr2:161308425-161411717
Strand	+
Gene summary	This gene encodes a component of the 26S proteasome. The 26S proteasome is a large multiprotein complex that catalyzes the degradation of ubiquitinated intracellular proteins. The encoded protein is a component of the 19S regulatory cap complex of the 26S proteasome and mediates substrate deubiquitination. A pseudogene of this gene is also located on the long arm of chromosome 2. [provided by RefSeq, Feb 2012]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	PSMD14P1
Bonobo	Pan paniscus	PSMD14P1
Gorilla	Gorilla gorilla	PSMD14P1
Orangutan	Pongo abelii	PSMD14P1
Green monkey	Chlorocebus sabaeus	PSMD14P1
Crab-eating macaque	Macaca fascicularis	PSMD14P1
Rhesus	Macaca mulatta	PSMD14P1
Baboon	Papio anubis	PSMD14P1
Golden snub-nosed monkey	Rhinopithecus roxellana	PSMD14P1
Marmoset	Callithrix jacchus	PSMD14P1
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

>PSMD14P1
aTTTGTCAACCAAGAAATTGAAGCTGAATGCCTTAATAATTGTAGTTACTGACCAGAAGTATAGGAAGACTTCTTAGACTCGGAGAAGATATGCCTGGACTGGGTCGTGGCCACCTACAGATGCTCCTGCAGTGGAAACAGCAGAAAAAGTCTATATTTCTTCCCTGGCACTGTTAAAAATGTTAAAGCACGGAGATGCTGGAGTTCCAATGGAAGTTACGGGTCTGAAGCTTGGAGAATTTGTTGATTATTATACCATCAGAGTGATTGACATGTTGGCTATGCCATAGGTGTCAGTGTGGAGGCATTTGATCTAATGTTCCAAGCTAAAACGTGAATATATTGAATCAGACAGGAAAGCCTGAGATGGTTACTGGTTGTCATCACAGTCACTTGGCTTGGTTGCTGGGGTTTCTGGGGTGGATATCAGTACTCAGCCGAGTTTTGAAGGCTTGTCAGAGGGAGCTTTGACGGTGGTTGTGGATTCCATTCGGAGTGTAAAAGGGAAGGTTGTTAGTGATGCCTTCAGGTTAATCAATGCTAATATGATGGTCTTGGTACATGAACCAAGACTAACAACTTCAAATATGAGTCACTTAAACAAGCCATCTATCCAGGCAATAATTGATGGATGAAACAGACATTATTACTCTATTACTGTTAACTATCAGAAAAATAAACTGGAATAGAAGATGTTGCTAAATTTGCATAAGAAGAGTTGAATGGAAGGTTTGACACTTCAGGATTACAATGAACATTATAAATGCAATGATTTAGTATTAAAATAGATGCTGGAATTGGCCAAGAATTACAAAAAGGCTGTAGATGAAGAAGATGAGATGACACCTAAACAGCTGGCAATAGGGTGTTGGCTAGCAGAACACTAATGTCACTTGGAGGAACAAGTGGATTTAGTCATGACTTCAAATATTGTTTAGCAACTATGTTGAATACTGTTGTATTTAAGTGAAGCAACAAAAGATTTATTAGTGATGATTTCAGTAGACATTTCTCTGTTGTTCCTAATGCTCAAAGTTAAGGGATGTATTTGGTTAAATGTAAGACATTTGGCATCATTTGTAGCACTGTAACCTTCAGTCTCACCTATGCAATTACTTTTGTTTCTTTAGTTAGGGTCTTTGCAGGTTCTAAAGTTATACAATAATTCATAAAAGTGGACACATTTTGTTAATATCCCATTTAATATTTGAAAAAATCAGTAGTACAATATATTTTGATTGTTGCTTACAAAATAAAATACATTTACA

>NM_005805.6
AAGTGCTTCGCGGCGGAGGCCCGGGCAACTCTTTTGAATGGAATCGGGCTGATTCATCGCCGGTTTGCAGACAGAGCCGCGTCGGGTGTGCGCCGCTGCTGCTGTTGCCTCTGTCTTCGCGTCACCACAGAGGCAAGACAAGGGTCCATATCGCGGCATCCGGCTCCCGCCCGTCTTCAGGAGAGAAAGAAAAAATAAAATATACTTGGGGAAGTTGTACCTGCCAGAATTAGCAAGAGCTTTCTTTAAGAAGACATTTGTCAAACTCAACAAATTGAAGGTTAACACCTTAAGAGTTGTAGTTACTGACCAGAAATATGGACAGACTTCTTAGACTTGGAGGAGGTATGCCTGGACTGGGCCAGGGGCCACCTACAGATGCTCCTGCAGTGGACACAGCAGAACAAGTCTATATCTCTTCCCTGGCACTGTTAAAAATGTTAAAACATGGCCGTGCTGGAGTTCCAATGGAAGTTATGGGTTTGATGCTTGGAGAATTTGTTGATGATTATACCGTCAGAGTGATTGATGTGTTTGCTATGCCACAGTCAGGAACAGGTGTCAGTGTGGAGGCAGTTGATCCAGTGTTCCAAGCTAAAATGTTGGATATGTTGAAGCAGACAGGAAGGCCGGAGATGGTTGTTGGTTGGTATCACAGTCACCCTGGCTTTGGTTGTTGGCTTTCTGGTGTGGATATCAACACTCAGCAGAGCTTTGAAGCCTTGTCGGAGAGAGCTGTGGCAGTGGTTGTGGATCCCATTCAGAGTGTAAAAGGAAAGGTTGTTATTGATGCCTTCAGATTGATCAATGCTAATATGATGGTCTTAGGACATGAACCAAGACAAACAACTTCGAATCTGGGTCACTTAAACAAGCCATCTATCCAGGCATTAATTCATGGACTAAACAGACATTATTACTCCATTACTATTAACTATCGGAAAAATGAACTGGAACAGAAGATGTTGCTAAATTTGCATAAGAAGAGTTGGATGGAAGGTTTGACACTTCAGGACTACAGTGAACATTGTAAACACAATGAATCAGTGGTAAAAGAGATGTTGGAATTAGCCAAGAATTACAATAAGGCTGTAGAAGAAGAAGATAAGATGACACCTGAACAGCTGGCAATAAAGAATGTTGGCAAGCAGGACCCCAAACGTCATTTGGAGGAACATGTGGATGTACTTATGACCTCAAATATTGTCCAGTGTTTAGCAGCTATGTTGGATACTGTCGTATTTAAATAAAGCAACGAAAAACGCTATTAATGATGCCTTCAGTGTATATTCCTCTGTTGTTCCTAATGCTCAAAATCAAGGGACCTCTGAAGGTGTACTTGGCTAAATGTAAGACATCTGGCATCATTTGCAGCACTGTAACACCTTCAGTCTCAGTTGTGCAATTACTTCTGTTTCTTTAGTCAGGGTCTTTGCAGATTCTAAAGTTATACATGAATACATCAAAGTGGACAAATTTTGTTAAGATCCCATTTAATATTTGAAAAAATCAGTAGCACAAATATATTTTGATTGTCACTTACAAAATAAAATACATTTACAGTCTA

>NM_005805.6 

AAGTGCTTCGCGGCGGAGGCCCGGGCAACTCTTTTGAATGGAATCGGGCTGATTCATCGCCGGTTTGCAGACAGAGCCGCGTCGGGTGTGCGCCGCTGCTGCTGTTGCCTCTGTCTTCGCGTCACCACAGAGGCAAGACAAGGGTCCATATCGCGGCATCCGGCTCCCGCCCGTCTTCAGGAGAGAAAGAAAAAATAAAATATACTTGGGGAAGTTGTACCTGCCAGAATTAGCAAGAGCTTTCTTTAAGAAGACATTTGTCAAACTCAACAAATTGAAGGTTAACACCTTAAGAGTTGTAGTTACTGACCAGAAATATGGACAGACTTCTTAGACTTGGAGGAGGTATGCCTGGACTGGGCCAGGGGCCACCTACAGATGCTCCTGCAGTGGACACAGCAGAACAAGTCTATATCTCTTCCCTGGCACTGTTAAAAATGTTAAAACATGGCCGTGCTGGAGTTCCAATGGAAGTTATGGGTTTGATGCTTGGAGAATTTGTTGATGATTATACCGTCAGAGTGATTGATGTGTTTGCTATGCCACAGTCAGGAACAGGTGTCAGTGTGGAGGCAGTTGATCCAGTGTTCCAAGCTAAAATGTTGGATATGTTGAAGCAGACAGGAAGGCCGGAGATGGTTGTTGGTTGGTATCACAGTCACCCTGGCTTTGGTTGTTGGCTTTCTGGTGTGGATATCAACACTCAGCAGAGCTTTGAAGCCTTGTCGGAGAGAGCTGTGGCAGTGGTTGTGGATCCCATTCAGAGTGTAAAAGGAAAGGTTGTTATTGATGCCTTCAGATTGATCAATGCTAATATGATGGTCTTAGGACATGAACCAAGACAAACAACTTCGAATCTGGGTCACTTAAACAAGCCATCTATCCAGGCATTAATTCATGGACTAAACAGACATTATTACTCCATTACTATTAACTATCGGAAAAATGAACTGGAACAGAAGATGTTGCTAAATTTGCATAAGAAGAGTTGGATGGAAGGTTTGACACTTCAGGACTACAGTGAACATTGTAAACACAATGAATCAGTGGTAAAAGAGATGTTGGAATTAGCCAAGAATTACAATAAGGCTGTAGAAGAAGAAGATAAGATGACACCTGAACAGCTGGCAATAAAGAATGTTGGCAAGCAGGACCCCAAACGTCATTTGGAGGAACATGTGGATGTACTTATGACCTCAAATATTGTCCAGTGTTTAGCAGCTATGTTGGATACTGTCGTATTTAAATAAAGCAACGAAAAACGCTATTAATGATGCCTTCAGTGTATATTCCTCTGTTGTTCCTAATGCTCAAAATCAAGGGACCTCTGAAGGTGTACTTGGCTAAATGTAAGACATCTGGCATCATTTGCAGCACTGTAACACCTTCAGTCTCAGTTGTGCAATTACTTCTGTTTCTTTAGTCAGGGTCTTTGCAGATTCTAAAGTTATACATGAATACATCAAAGTGGACAAATTTTGTTAAGATCCCATTTAATATTTGAAAAAATCAGTAGCACAAATATATTTTGATTGTCACTTACAAAATAAAATACATTTACAGTCTA

Publications

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