RCPedia: Rtcs

Summary

Retrocopy Name	YBX1P29	Plot displaying the genomic locations of a retrocopy (in chr15) and its respective parental gene (in chr2). Each line represents a retrocopy.
Species	Microcebus murinus
Coordinates	chr15:43984738-43985023 UCSC
Strand	-
Parental Sequence	XM_012748459.2
Parental seq. overlap	249 bp
Parental seq. overlap (%)	14.2%
Genomic Region	Intragenic (EXOC6)
Retrocopy Summary	YBX1P29, located on chr15:43984738-43985023, is a retrocopy of the parental gene YBX1. 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	YBX1
Full Name	N/A
Also known as	-
Coordinate	chr2:28991846-29011120
Strand	-
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Human	Homo sapiens	YBX1P13
Chimpanzee	Pan troglodytes	YBX1P11
Bonobo	Pan paniscus	YBX1P9
Gorilla	Gorilla gorilla	YBX1P10
Orangutan	Pongo abelii	YBX1P13
Gibbon	Nomascus leucogenys	YBX1P2
Green monkey	Chlorocebus sabaeus	YBX1P2
Crab-eating macaque	Macaca fascicularis	YBX1P6
Rhesus	Macaca mulatta	YBX1P7
Baboon	Papio anubis	YBX1P9
Golden snub-nosed monkey	Rhinopithecus roxellana	YBX1P11
Marmoset	Callithrix jacchus	YBX1P18
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

>YBX1P29
AAAACCCTAAACCATAAAATGGCAAAGAGACAAAAGCAATCAATCCACCAGCTAAGAATTCCCAGGGCTGAGCAGAACAGGGCTGAGTATATGCCAGCTTACTGCCTCTACCATCATTCAGTTTAATCAtccaacaagaagaaataaatatgaaattccagcaataagaaatgagcaaaagattgGAGCTGAAGATCTTAAGTGTTTGCCTTTTGTCCATTGACTTGATAACTAGAACTATCTGCATTATCTATGTAAcatggggtttttatttttacctaaagaC

>XM_012748459.2
ATTCTAGTTCCGGTCTCTATGGCGGCGGCGGAGGCAGGAACGGTTGTAGGTCGGCTGAATTAGCCGCCTAAGGGCCAATGAGACTGGAGGAGTGATAAAGTATTAACCAATATAGGCCAGGAATTGGGGTCAGGTGGTGAGATTGACAGCAAGGCTGGCCAGTCAACAATGCCGAGGGCGGGTCGATCATCGGGCTTATCCCGCCTGTCCCGCCATTCTCGCTAGTTCGATCGGTAGCGGGAGCGGAGAGCGGACCCCAGAGTGCCCTGTGCAGCCCCACCGCCGCCGCCGGCCTAGTTACCATCACACATCGGGAGGAGCCGCAGCTGCCGCAGCCGGCCCCAGTCACCATCACCGCAACTATGAGCAGCGAGGCCGAGACCCAGCAGCCGCCCGCCgccccccccgccgcccccgccctcaGCGCTGCCGACACCAAGCCCGGCACCACGGGCAGCGGCGCAGGGAGCGGTGGCCCGGGCGGCATTACATCGGCGGCGCCTGCCGGCGGGGACAAGAAGGTCATCGcaACGAAGGTTTTGGGGACAGTAAAATGGTTCAATGTAAGAAACGGATATGGTTTCATCAACAGGAATGACACCAAGGAAGATGTATTTGTACACCAGACTGCCATAAAGAAGAATAACCCCAGGAAGTACCTTCGCAGTGTAGGAGATGGAGAGACTGTGGAGTTTGATGTTGTTGAAGGAGAAAAGGGTGCGGAGGCAGCAAATGTTACAGGCCCTGGTGGAATTCCAGTTCAAGGCAGTAAATATGCAGCAGACCGTAACCATTATAGACGCTATCCACGTCGCAGGGGTCCTCCACGCAATTACCAGCAAAATTACCAGAACAGTGAGAGTGGGGAAAAGAATGAGGGATCGGAGAGTGCTCCTGAAGGCCAGGCCCAACAACGCCGGCCCTACCGCAGGCGAAGGTTCCCACCTTACTACATGCGGAGACCCTATGGGCGTCGACCACAGTATTCCAACCCTCCTGTACAGGGAGAAGTGATGGAGGGTGCTGACAACCAGGGTGCAGGAGAACAAGGTAGACCACCAGTAAGACAGAATATGTATCGGGGTTATAGACCACGATTCCGCAGGGGCCCTCCTCGCCAAAGACAGCCCAGAGAGGACGGCAATGAAGAGGATAAAGAGAATCAAGGAGATGAGACCCAAGGTCAGCAGCCGCCTCAACGTCGGTACCACCGCAACTTCAATTACCGACGCAGACGCCCAGAAAACCCTAAACCACAAGATGGCAAAGAGACAAAAGCAGCCGATCCACCAGCTGAGAATTCGTCCGCTCCCGAGGCTGAGCAGGGCGGGGCTGAGTAAATGCCGGCTTACCATCTCTACCATCGTCCGGtttagtCATCCaacaagaaatgaatatgaaattccagcaataagaaatgaagaaaagattggAACTGAAGACCTTAAGTGCTTGCTTTTTGCCCGTTGACCAGATAACTAGAACTATCTGCATTATCTATGCAGCAtggggtttttattatttttacctaaagatgtcttttttggtaataacaaacgtgttttttaaaaaaagcctggtttttctctatgcctttaaaggtttttaaattgtttcatatctggtcaagttgagatttttaagaacttcatttttaatttgtaataaaagttcacaaacttgattttttgaaaaaagtcaacaaactgCAAGCACCTGTTAATAAAGGtcttaaataattatctttgtgta

>XM_012748459.2 

ATTCTAGTTCCGGTCTCTATGGCGGCGGCGGAGGCAGGAACGGTTGTAGGTCGGCTGAATTAGCCGCCTAAGGGCCAATGAGACTGGAGGAGTGATAAAGTATTAACCAATATAGGCCAGGAATTGGGGTCAGGTGGTGAGATTGACAGCAAGGCTGGCCAGTCAACAATGCCGAGGGCGGGTCGATCATCGGGCTTATCCCGCCTGTCCCGCCATTCTCGCTAGTTCGATCGGTAGCGGGAGCGGAGAGCGGACCCCAGAGTGCCCTGTGCAGCCCCACCGCCGCCGCCGGCCTAGTTACCATCACACATCGGGAGGAGCCGCAGCTGCCGCAGCCGGCCCCAGTCACCATCACCGCAACTATGAGCAGCGAGGCCGAGACCCAGCAGCCGCCCGCCgccccccccgccgcccccgccctcaGCGCTGCCGACACCAAGCCCGGCACCACGGGCAGCGGCGCAGGGAGCGGTGGCCCGGGCGGCATTACATCGGCGGCGCCTGCCGGCGGGGACAAGAAGGTCATCGcaACGAAGGTTTTGGGGACAGTAAAATGGTTCAATGTAAGAAACGGATATGGTTTCATCAACAGGAATGACACCAAGGAAGATGTATTTGTACACCAGACTGCCATAAAGAAGAATAACCCCAGGAAGTACCTTCGCAGTGTAGGAGATGGAGAGACTGTGGAGTTTGATGTTGTTGAAGGAGAAAAGGGTGCGGAGGCAGCAAATGTTACAGGCCCTGGTGGAATTCCAGTTCAAGGCAGTAAATATGCAGCAGACCGTAACCATTATAGACGCTATCCACGTCGCAGGGGTCCTCCACGCAATTACCAGCAAAATTACCAGAACAGTGAGAGTGGGGAAAAGAATGAGGGATCGGAGAGTGCTCCTGAAGGCCAGGCCCAACAACGCCGGCCCTACCGCAGGCGAAGGTTCCCACCTTACTACATGCGGAGACCCTATGGGCGTCGACCACAGTATTCCAACCCTCCTGTACAGGGAGAAGTGATGGAGGGTGCTGACAACCAGGGTGCAGGAGAACAAGGTAGACCACCAGTAAGACAGAATATGTATCGGGGTTATAGACCACGATTCCGCAGGGGCCCTCCTCGCCAAAGACAGCCCAGAGAGGACGGCAATGAAGAGGATAAAGAGAATCAAGGAGATGAGACCCAAGGTCAGCAGCCGCCTCAACGTCGGTACCACCGCAACTTCAATTACCGACGCAGACGCCCAGAAAACCCTAAACCACAAGATGGCAAAGAGACAAAAGCAGCCGATCCACCAGCTGAGAATTCGTCCGCTCCCGAGGCTGAGCAGGGCGGGGCTGAGTAAATGCCGGCTTACCATCTCTACCATCGTCCGGtttagtCATCCaacaagaaatgaatatgaaattccagcaataagaaatgaagaaaagattggAACTGAAGACCTTAAGTGCTTGCTTTTTGCCCGTTGACCAGATAACTAGAACTATCTGCATTATCTATGCAGCAtggggtttttattatttttacctaaagatgtcttttttggtaataacaaacgtgttttttaaaaaaagcctggtttttctctatgcctttaaaggtttttaaattgtttcatatctggtcaagttgagatttttaagaacttcatttttaatttgtaataaaagttcacaaacttgattttttgaaaaaagtcaacaaactgCAAGCACCTGTTAATAAAGGtcttaaataattatctttgtgta

Publications

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