RCPedia: Rtcs

Summary

Retrocopy Name	LOC100596299P2	Plot displaying the genomic locations of a retrocopy (in chr3) and its respective parental gene (in NW_022096452.1). Each line represents a retrocopy.
Species	Nomascus leucogenys
Coordinates	chr3:120545604-120545912 UCSC
Strand	-
Parental Sequence	XM_003281697.4
Parental seq. overlap	272 bp
Parental seq. overlap (%)	33.1%
Genomic Region	Intergenic
Retrocopy Summary	LOC100596299P2, located on chr3:120545604-120545912, is a retrocopy of the parental gene LOC100596299. 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	LOC100596299
Full Name	N/A
Also known as	LOC100596299
Coordinate	NW_022096452.1:23498-28396
Strand	+
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	CHCHD2P4
Chimpanzee	Pan troglodytes	CHCHD2P4
Bonobo	Pan paniscus	CHCHD2P5
Gorilla	Gorilla gorilla	CHCHD2P4
Orangutan	Pongo abelii	CHCHD2P5
Green monkey	Chlorocebus sabaeus	CHCHD2P7
Crab-eating macaque	Macaca fascicularis	CHCHD2P4
Rhesus	Macaca mulatta	CHCHD2P4
Baboon	Papio anubis	CHCHD2P5
Golden snub-nosed monkey	Rhinopithecus roxellana	CHCHD2P2
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

This retrocopy transcript is not present in the database for expression quantification

Related Sequence

>LOC100596299P2
GTGGGGTACACACTGGGTCATACCATCATTGGGGGCTTCAGTGAAGGAAGTAATGCTGAGCCTGCAAGTCCTGACATCACCTACCAGGAGCCCCAGGGAACCCAGATGCCACAGCGGCAGCAGCCTTGCTTCTACGAGATAAAACCGTTTTTGGAGTGTGCCCGGAACCGGGTGACATAAAGCTCCGTGAGGGTTTCAGTGAGGTGCTGAAACAGTGCAGACCTGCAAATGGACTGGCCCAATCGAGAAGTTCAAATTGGAGAAATGGAAAATCAGCTCTCATAACCAAGTTAATTTAGTataaaaatg

>XM_003281697.4
CAGCCCCGCCTCCCACCTTCCGGTCTTCTCAGAAGTCGCTTGGCTCTTCGCTGGTTGTCACCCGTCTGGAGGCCTAGCCGTCGCGTACCTAGGATGCCGCGTGGAAGCCGAAGCCGCACCTCCCGCATGGCCCCTCCGGCCAGccGGGCCCCTCAGATGAGAGCTACACCCAGGCCAGCACCAGTCGCTCAGCCACCAGCAGCGGCCCCATCTGCAGTTGGCTCTTCTGCTGCTGTGCCCCGGCAGCCTGGTCTGATGGCCCAAATGGCAACCACTGCAGCTGGCGTGGCTGTGGGCTCTGCTGTGGGGCACACATTGGGTCACGCTATTACTGGgggcttcagtggaggaagtaatgCTGAGCCTGCGAGACCTGACATCACTTACCAGGAGCCTCAGGGAACCCAgccagcacagcagcagcagccttgcTTCTATGAGATCAAACAGTTTCTGGAGTGTGCCCAGAACCAGGGTGACATCAAGCTCTGTGAGGGTTTCAATGAGGTGCTGAAACAGTGCCGACTTGCAAACGGATTGGCCTAATGAAGAAGTTCAACCTGGAGAGATGGAAAATCAGCTCTCATAACTAAGTTAATTtagtataaaaatagaattgataGTGAGGGTATAAAGTGTAACCATCAGTTAAACCTCTCCTGTCATTCCTAGCTTCCTTGCTTCAGAATTGAAATGGAATGGGGGGTGTCCCTACTCTGTAGAATCTGGGACTGGGCAAATGTTTGTGTGGCCTCCTTAAACTAGCtgttatgattttattctttgtgagTTAATTAGAATAAAGTCATTTTCTTCCAAGA

>XM_003281697.4 

CAGCCCCGCCTCCCACCTTCCGGTCTTCTCAGAAGTCGCTTGGCTCTTCGCTGGTTGTCACCCGTCTGGAGGCCTAGCCGTCGCGTACCTAGGATGCCGCGTGGAAGCCGAAGCCGCACCTCCCGCATGGCCCCTCCGGCCAGccGGGCCCCTCAGATGAGAGCTACACCCAGGCCAGCACCAGTCGCTCAGCCACCAGCAGCGGCCCCATCTGCAGTTGGCTCTTCTGCTGCTGTGCCCCGGCAGCCTGGTCTGATGGCCCAAATGGCAACCACTGCAGCTGGCGTGGCTGTGGGCTCTGCTGTGGGGCACACATTGGGTCACGCTATTACTGGgggcttcagtggaggaagtaatgCTGAGCCTGCGAGACCTGACATCACTTACCAGGAGCCTCAGGGAACCCAgccagcacagcagcagcagccttgcTTCTATGAGATCAAACAGTTTCTGGAGTGTGCCCAGAACCAGGGTGACATCAAGCTCTGTGAGGGTTTCAATGAGGTGCTGAAACAGTGCCGACTTGCAAACGGATTGGCCTAATGAAGAAGTTCAACCTGGAGAGATGGAAAATCAGCTCTCATAACTAAGTTAATTtagtataaaaatagaattgataGTGAGGGTATAAAGTGTAACCATCAGTTAAACCTCTCCTGTCATTCCTAGCTTCCTTGCTTCAGAATTGAAATGGAATGGGGGGTGTCCCTACTCTGTAGAATCTGGGACTGGGCAAATGTTTGTGTGGCCTCCTTAAACTAGCtgttatgattttattctttgtgagTTAATTAGAATAAAGTCATTTTCTTCCAAGA

Publications

PMID - Link	Title
No publications available for this retrocopy