RCPedia: Rtcs

Summary

Retrocopy Name	YY1P1	Plot displaying the genomic locations of a retrocopy (in scaffold_m29_p_1) and its respective parental gene (in scaffold_m29_p_8). Each line represents a retrocopy.
Species	Rhinolophus ferrumequinum
Coordinates	scaffold_m29_p_1:110913556-110914158 UCSC
Strand	-
Parental Sequence	YY1_x1
Parental seq. overlap	444 bp
Parental seq. overlap (%)	34.8%
Genomic Region	Intergenic
Retrocopy Summary	YY1P1, located on scaffold_m29_p_1:110913556-110914158, is a retrocopy of the parental gene YY1. 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	YY1
Full Name	N/A
Also known as	NULL
Coordinate	scaffold_m29_p_8:3303333-3334155
Strand	-
Gene summary	N/A

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	YY1P4
Bonobo	Pan paniscus	YY1P4
Gorilla	Gorilla gorilla	YY1P4
Green monkey	Chlorocebus sabaeus	YY1P4
Crab-eating macaque	Macaca fascicularis	YY1P4
Rhesus	Macaca mulatta	YY1P4
Baboon	Papio anubis	YY1P4
Golden snub-nosed monkey	Rhinopithecus roxellana	YY1P1
Marmoset	Callithrix jacchus	YY1P3
Mouse lemur	Microcebus murinus	YY1P3
Rabbit	Oryctolagus cuniculus	YY1P3
Pig	Sus scrofa	YY1P1
Cow	Bos taurus	YY1P1
Sheep	Ovis aries	YY1P1
Dolphin	Tursiops truncatus	YY1P1
Dog	Canis familiaris	YY1P1
Panda	Ailuropoda melanoleuca	YY1P2
Cat	Felis catus	YY1P2
Pale spear-nosed bat	Phyllostomus discolor	YY1P1
Velvety free-tailed bat	Molossus molossus	YY1P1
Greater mouse-eared bat	Myotis myotis	YY1P1
Human	Homo sapiens	Without Homology
Orangutan	Pongo abelii	Without Homology
Gibbon	Nomascus leucogenys	Without Homology
Mouse	Mus musculus	Without Homology
Rat	Rattus norvegicus	Without Homology
Chinese hamster	Cricetulus griseus	Without Homology
Horse	Equus caballus	Without Homology
Kuhl's pipistrelle	Pipistrellus kuhlii	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

>YY1P1
CTCCTGATTATTCGGAGTACCTGACAGGAAAGAAATTTCCTCCTGAAGGAATACCTGGCATTGACCTCTCAGATCCAAAGCAGCTGGCAGAGTTTGCTAAATTTAAGCAAAAGAAATCCAAAGATGATATTCCAAAACCAATCGCTTGCCCTCATTCGGGCTGCGCAAAGATGTTCAGGGATAGCGGTGCTATGAGAAAGCATCTGCATACCCACGGTCCCAGAGTCCATGTTTTCAGTGCACGTTTGAAGGTTGCGGAAAACGCTTTTCCCTGGATTTCAATTTGCGTACACATGAGCGAATCCATACCGGGGACAAGCCCTTCATGTGCCCCTTTGATGGTTGTGATAGGAGGTTTGCTCAGTCAACTAACCTGAAAACTCATATGTTAACACATGCTAAGAATAAAAATAGCCAGTGAAAAGGAGAAAAGACCCTTCTCAAACTAGGGAAGGTTCTTCCAGGAGTGTAATTGGAAATAAATATGCCTCTTTCTTGTATATTGTTTCTAGGAAATAATTTTT

>YY1_x1
GATATTGACCATGAGACGGTGGTTGAAGAACAGATCATTGGCGAGAACTCCCCTCCTGATTATTCAGAGTATATGACAGGAAAGAAACTTCCTCCTGGAGGGATACCTGGCATTGACCTCTCAGATCCCAAACAACTGGCGGAATTTGCTAGAATGAAGCCAAGAAAAATTAAAGAAGATGATGCTCCAAGAACAATAGCTTGCCCTCATAAAGGCTGCACAAAGATGTTCAGGGATAACTCTGCCATGAGAAAGCATCTGCACACCCACGGCCCCCGAGTCCACGTCTGTGCAgaatgcggcaaagcttttgtcgagagctcaaagctaaaacgacaccaactggttcatactggagagaagccCTTTCAGTGCACGTTCGAAGGCTGTGGGAAACGCTTTTCACTGGACTTCAATTTGCGCACACACGTGCGAATCCATACTGGAGACAGGCCCTATGTGTGCCCCTTCGATGGTTGTAATAAGAAGTTTGCTCAGTCGACTAACCTGAAATCTCACATCTTAACACATGCTAAGGCCAAAAACAACCAGTGAGAAGACGAGAGAGAAGAGCCTTCTCGACCCCGGGGAGCGTCTTCCAGGAGTGTGATTGGGAATAAATATGCCTCTCCTTTGTATATTGTTTCTAGGAAAGAATTTTAAAAATGAATCCTACACACCTAAGGGACATGTTTTGATAAAGTAGTAAAAATTAAAAAAAAACTTTAATAAGATGACATTGCTAAGATATGCTCTATCTTGCTCTGTAATCTCGTTTCAAAAACACGGTGTTTTTGTAAAGTGTGGTCCCAACTGGAGGACAATTCATGAACTTCGCATCAAAAGACAATTCTTTATACAACAGTGCTAAAAATGGGACTTCTTTTCACATTCTTATAAATATGAAGCTCACCTGTTGCTTACAATTTTTTTAATTTTGTATTTTCCAAGTGTGCATATTGTACACTTTTTGGGGATATGCTTAGTAATGCTATGTGTGATTTTTCTGGAGGTTGATAACTTTGCTTGCAGTAGATTTTCTTTAAAAGAATGGGCAGTTACATGCATACTTCAAAAGTATTTTCCTGTAAAAAAAAGTTACATAGGTTTTGTTTGCTATCTTAATTTTGGTTGTATTCTTTGATGTTAACACATTTTGTATAATTGTACCGTATAGCTGTATTGAATCATGTAGTATCAAATATTAGGTGTGATTTAATAGTGTTAATCAATTTAAACCCATTTTAGTCACTTTTTTTTTCCGAAAAATACTGCC

>YY1_x1 

GATATTGACCATGAGACGGTGGTTGAAGAACAGATCATTGGCGAGAACTCCCCTCCTGATTATTCAGAGTATATGACAGGAAAGAAACTTCCTCCTGGAGGGATACCTGGCATTGACCTCTCAGATCCCAAACAACTGGCGGAATTTGCTAGAATGAAGCCAAGAAAAATTAAAGAAGATGATGCTCCAAGAACAATAGCTTGCCCTCATAAAGGCTGCACAAAGATGTTCAGGGATAACTCTGCCATGAGAAAGCATCTGCACACCCACGGCCCCCGAGTCCACGTCTGTGCAgaatgcggcaaagcttttgtcgagagctcaaagctaaaacgacaccaactggttcatactggagagaagccCTTTCAGTGCACGTTCGAAGGCTGTGGGAAACGCTTTTCACTGGACTTCAATTTGCGCACACACGTGCGAATCCATACTGGAGACAGGCCCTATGTGTGCCCCTTCGATGGTTGTAATAAGAAGTTTGCTCAGTCGACTAACCTGAAATCTCACATCTTAACACATGCTAAGGCCAAAAACAACCAGTGAGAAGACGAGAGAGAAGAGCCTTCTCGACCCCGGGGAGCGTCTTCCAGGAGTGTGATTGGGAATAAATATGCCTCTCCTTTGTATATTGTTTCTAGGAAAGAATTTTAAAAATGAATCCTACACACCTAAGGGACATGTTTTGATAAAGTAGTAAAAATTAAAAAAAAACTTTAATAAGATGACATTGCTAAGATATGCTCTATCTTGCTCTGTAATCTCGTTTCAAAAACACGGTGTTTTTGTAAAGTGTGGTCCCAACTGGAGGACAATTCATGAACTTCGCATCAAAAGACAATTCTTTATACAACAGTGCTAAAAATGGGACTTCTTTTCACATTCTTATAAATATGAAGCTCACCTGTTGCTTACAATTTTTTTAATTTTGTATTTTCCAAGTGTGCATATTGTACACTTTTTGGGGATATGCTTAGTAATGCTATGTGTGATTTTTCTGGAGGTTGATAACTTTGCTTGCAGTAGATTTTCTTTAAAAGAATGGGCAGTTACATGCATACTTCAAAAGTATTTTCCTGTAAAAAAAAGTTACATAGGTTTTGTTTGCTATCTTAATTTTGGTTGTATTCTTTGATGTTAACACATTTTGTATAATTGTACCGTATAGCTGTATTGAATCATGTAGTATCAAATATTAGGTGTGATTTAATAGTGTTAATCAATTTAAACCCATTTTAGTCACTTTTTTTTTCCGAAAAATACTGCC

Publications

PMID - Link	Title
No publications available for this retrocopy