RCPedia: Rtcs

Summary

Retrocopy Name	STMP1P5	Plot displaying the genomic locations of a retrocopy (in chr16) and its respective parental gene (in chr7). Each line represents a retrocopy.
Species	Gorilla gorilla
Coordinates	chr16:20240969-20241121 UCSC
Strand	+
Parental Sequence	XM_004046276.3
Parental seq. overlap	134 bp
Parental seq. overlap (%)	10.2%
Genomic Region	Intragenic (OTOA)
Retrocopy Summary	STMP1P5, located on chr16:20240969-20241121, is a retrocopy of the parental gene STMP1. 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	STMP1
Full Name	N/A
Also known as	STMP1
Coordinate	chr7:127952591-127965311
Strand	+
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	STMP1P5
Chimpanzee	Pan troglodytes	STMP1P5
Bonobo	Pan paniscus	STMP1P5
Orangutan	Pongo abelii	STMP1P4
Gibbon	Nomascus leucogenys	STMP1P2
Green monkey	Chlorocebus sabaeus	C21H7orf73P1
Crab-eating macaque	Macaca fascicularis	C3H7orf73P5
Baboon	Papio anubis	STMP1P5
Marmoset	Callithrix jacchus	STMP1P4
Rhesus	Macaca mulatta	Without Homology
Golden snub-nosed monkey	Rhinopithecus roxellana	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

>STMP1P5
CCCTCGCCCTCTCTACTGACATCCTGCTCCAGTTCCCACTTGGATTTACTTTGGGGAATGTGGTTGGAATATATCTGGCTCAGAACCATGACATACCAAACCCAGCTTTAAAAACTTGAAGAAATTTAAAAAGACTTGGATGCCAAGAAGAAA

>XM_004046276.3
GTCGACGGGGGGTTCCGCCCCCCTGCGCATGGGGAGGTAGGCTCGGACCGGCCCGCGGAGCTGCTGCAGTCCTTCGCGCCCTCCTCGCCCTCCCCACCGACATCATGCTCCAGTTCCTGCTTGGATTTACACTGGGCAACGTGGTTGGAATGTATCTGGCTCAGAACTATGACATACCAAACCTGGCTAAAAAACTTGAAGAAATTAAAAAGGACTTGGATGCCAAGAAGAAACCCCCTAGTGCCTGAGACTGCCTCCAGCACTGCCCTCAGGATACACTGATTCTACTGCTCTTGAGGGCCTCGTTTACTATCTGAACCAAAAGCTTTTGTTTTCATCTCCAGCCTCAGCACTTCTCTTCTTTGCTAGACCCTGTGTTTTTTGCTTTAAAGCAAGCAAAATGGGGCCCCAATTTGAGAACTACCCCACATTTCCAACATACTCACCTCTTCCCATAATCCCTTTCCAACTGCATGGGAGGTTCTAAGACTGGAATTATGGTGCTAGATTAGTAAACATGACTTTTAATGAGTAGTGTCTTCTTTATTGTTTGCGATTTTTACTACCTTTTTTCAAAAGAAAAATTGATGAGTTTTGTATAGCTGGTCAGATACAAATAATAGTGACTTCACAGTTTAGTAATTATAATGGGTACTTGTTAAACATTTGGTACTAAATTATGTTGCTGCAAAGTAATTAAAATTAATATCTAGAACTAGTTTCTGGTGAATTATTCATTTATTTTGTACTGTTGTTAGGCAGCTCTGTAGTGGCTAATTTAACCAATAAGTCAATTTGCTATTCATTAAGAAACGATTCTGAGAATCCTATCAGGAATTGGGGAATGAAAAAATACACAAAATAATGGTCTTTGTCCCAGTAGAGTTCATAGTCTATTTAGTGTGCATGTTTTTCCTTAATGATGTATTTGATCTGACTTTTTTCCTTCTCAAAAGAATCATACTTGGGATTACAGGTACATTTGATGTTATGTGATGGATAAGTGAAAAGTTTTTAAAGGAGATTTTATACCTTTTCACATTAAAAAAGGTATTTATATTATTACTTTGTAGTGATTGTCTTAAGAAAAAATATAGCCCAAATGTATAGTAAAATCAGCAGCTCAAGAAGAATTTCTGCTTCTCTTTGTAGTTGATGCTTTGTTTTTTCCTGCAGTCAGAAATTCCTTGTATTTGTCAAATGTATAAACAGCTTGTATTGTTTTTAAATTAAAAAAAATTTGAATAATTAACTTTTGCCATGGGACaagatacaaaagtaatttcatataaagggcctctcccacccctgt

>XM_004046276.3 

GTCGACGGGGGGTTCCGCCCCCCTGCGCATGGGGAGGTAGGCTCGGACCGGCCCGCGGAGCTGCTGCAGTCCTTCGCGCCCTCCTCGCCCTCCCCACCGACATCATGCTCCAGTTCCTGCTTGGATTTACACTGGGCAACGTGGTTGGAATGTATCTGGCTCAGAACTATGACATACCAAACCTGGCTAAAAAACTTGAAGAAATTAAAAAGGACTTGGATGCCAAGAAGAAACCCCCTAGTGCCTGAGACTGCCTCCAGCACTGCCCTCAGGATACACTGATTCTACTGCTCTTGAGGGCCTCGTTTACTATCTGAACCAAAAGCTTTTGTTTTCATCTCCAGCCTCAGCACTTCTCTTCTTTGCTAGACCCTGTGTTTTTTGCTTTAAAGCAAGCAAAATGGGGCCCCAATTTGAGAACTACCCCACATTTCCAACATACTCACCTCTTCCCATAATCCCTTTCCAACTGCATGGGAGGTTCTAAGACTGGAATTATGGTGCTAGATTAGTAAACATGACTTTTAATGAGTAGTGTCTTCTTTATTGTTTGCGATTTTTACTACCTTTTTTCAAAAGAAAAATTGATGAGTTTTGTATAGCTGGTCAGATACAAATAATAGTGACTTCACAGTTTAGTAATTATAATGGGTACTTGTTAAACATTTGGTACTAAATTATGTTGCTGCAAAGTAATTAAAATTAATATCTAGAACTAGTTTCTGGTGAATTATTCATTTATTTTGTACTGTTGTTAGGCAGCTCTGTAGTGGCTAATTTAACCAATAAGTCAATTTGCTATTCATTAAGAAACGATTCTGAGAATCCTATCAGGAATTGGGGAATGAAAAAATACACAAAATAATGGTCTTTGTCCCAGTAGAGTTCATAGTCTATTTAGTGTGCATGTTTTTCCTTAATGATGTATTTGATCTGACTTTTTTCCTTCTCAAAAGAATCATACTTGGGATTACAGGTACATTTGATGTTATGTGATGGATAAGTGAAAAGTTTTTAAAGGAGATTTTATACCTTTTCACATTAAAAAAGGTATTTATATTATTACTTTGTAGTGATTGTCTTAAGAAAAAATATAGCCCAAATGTATAGTAAAATCAGCAGCTCAAGAAGAATTTCTGCTTCTCTTTGTAGTTGATGCTTTGTTTTTTCCTGCAGTCAGAAATTCCTTGTATTTGTCAAATGTATAAACAGCTTGTATTGTTTTTAAATTAAAAAAAATTTGAATAATTAACTTTTGCCATGGGACaagatacaaaagtaatttcatataaagggcctctcccacccctgt

Publications

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