RCPedia: Rtcs

Summary

Retrocopy Name	RPL7L1P64	Plot displaying the genomic locations of a retrocopy (in chr13) and its respective parental gene (in chr6). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr13:100470046-100470355 UCSC
Coordinates (T2T)	chr13:99685303-99685613 UCSC
Coordinates (hg19)	chr13:101122300-101122609 UCSC
Strand	+
Parental Sequence	NM_198486.5
Parental seq. overlap	282 bp
Parental seq. overlap (%)	7.4%
Genomic Region	Intragenic (PCCA)
Retrocopy Summary	RPL7L1P64, located on chr13:100470046-100470355, is a retrocopy of the parental gene RPL7L1. 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	RPL7L1
Full Name	ribosomal protein L7 like 1
Also known as	dJ475N16.4
Coordinate	chr6:42879616-42889900
Strand	+
Gene summary	Enables RNA binding activity. Predicted to be involved in maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA). Predicted to act upstream of or within blastocyst formation. Predicted to be located in nucleolus. Predicted to be part of cytosolic large ribosomal subunit. [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	RPL7L1P23
Bonobo	Pan paniscus	RPL7L1P23
Gorilla	Gorilla gorilla	RPL7L1P18
Orangutan	Pongo abelii	RPL7L1P21
Gibbon	Nomascus leucogenys	RPL7L1P7
Green monkey	Chlorocebus sabaeus	RPL7L1P3
Crab-eating macaque	Macaca fascicularis	RPL7L1P22
Rhesus	Macaca mulatta	RPL7L1P23
Baboon	Papio anubis	RPL7L1P23
Golden snub-nosed monkey	Rhinopithecus roxellana	RPL7L1P25
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

Related Sequence

>RPL7L1P64
GGGGAAGTATTTCCAGGAGACTTCATGGTTCTTGCGTCGTTTCCACCTCTCAGTGGCCCATCATGCTACCAAAAATAGAGTGGGCTTCCTCGAGATGGGCACACCTGGCTATCGGGGTGAACACGTCAATCAGCTCATCCGCCAGCTGAACTAGACCCAGGTGCCAAACTGCAGTACATTTTTATCAGTGAAGTGGAAGCGTGTGTTTTGGGTTTTTTTGGGGAATTTTTATCAAGTATCTTCAGAGAAGATTATTTCCTGCTTAATCTTCAAAAACTGGAAAGGAAGGGTCAAAGAAAAGACAGTAGCT

>NM_198486.5
GTAGCTAGGAGCGGACGCCATAGGTGCATTGTGGGAAGCACTTTGCTGTCCACAGCCAGGCCGCTTGTGATGAAACTGTAACTTACAAGAAAAGGGCTGGGTTTTGAAAATAACACAGGCTCTAAAAACCCTAAGAAGCGGTGCAACTTTTGGCAGGAATCGGGGTTAGCGGGACCTCAAGGGCTCACTGCGGCTAAGTGAACGCTGACTGGTCCTCCAGCGTGAGCTAGAACAGACGTCTCTATGGTCAAGTAAACAGAGCGTGTGCTGTCTTCCCCATGTGGTGGGGTTGCGCATGATCAGTAGCTGCACCACTAGAAAGATGGCGGAGCAAGAGCAAAGAAAAATCCCTTTGGTTCCAGAAAATCTCCTGAAAAAGAGGAAGGCTTATCAAGCCCTCAAAGCCACCCAGGCAAAGCAGGCACTTTTGGCAAAGAAGGAGCAGAAGAAAGGAAAAGGGCTCAGGTTTAAGCGACTGGAATCATTCCTACATGATTCCTGGCGGCAGAAACGTGACAAGGTGCGTCTCAGACGACTAGAAGTGAAACCTCATGCCTTGGAATTGCCAGATAAACATTCCTTGGCCTTTGTTGTACGCATCGAAAGGATTGACGGCGTGAGTTTACTGGTGCAGAGAACCATTGCAAGACTTCGCCTAAAGAAAATTTTTAGTGGTGTCTTTGTAAAAGTCACCCCCCAGAATCTAAAAATGCTGCGTATAGTGGAACCTTATGTGACCTGGGGATTTCCAAATCTGAAGTCTGTCCGAGAACTCATTTTGAAACGTGGACAAGCCAAGGTCAAGAATAAGACCATCCCTCTGACAGACAATACAGTGATTGAGGAGCACCTGGGGAAGTTTGGCGTCATTTGCTTGGAAGACCTCATTCATGAAATTGCCTTCCCAGGGAAGCATTTCCAGGAGATCTCATGGTTCTTGTGCCCTTTCCACCTCTCAGTGGCCCGTCATGCTACCAAAAATAGAGTGGGCTTCCTCAAGGAGATGGGCACACCTGGCTATCGGGGTGAACGCATCAATCAGCTCATCCGTCAGCTGAACTAGACCCAGGTGCCAAACTGCGGTAAATTTTTTATCAGTGAAGTGGAAGCATGTGTTTTGTTTTGGAAATTTTTATCAAGTATCTTCAGAGAAGATTATTTCCTGCTTTATCTTCAGAAACTGGAAAGGGTCAAAGAAAAGACAGTAGCTggccggtcgtggtggctcatgcctgtaatcccaacacttagggaggctgaggtgggcagatcacctgaggttgggagttcgagaccagcctgaccaacatggagaaatgccatctctactaaaaatacaaaaattagccgggcatggtggcacgtgcctgtaatcccagctactcaggaggctgaggcaggagaatcgcttgaacctgggaggtggaagttgcagtgagctgagatcacgccattgcactccagcctgggcaacaagcgaaactctgtctcaaaaaaaaagaaaaGACAGTAGCATATGTTCATGTCAAGCACCTCTCATCACAGTCGAGTTCCAAGGAAAAATTCCAGTGTTTTCTGCATTGGGTGCTGTGTCATCTGAAATCGGCACATTCCATGGAGGAAGGAGTCCTGCTTTGTTGCATGTATCCTAGGGTTTAATGTTGGTAAATGAGTCACTCTAGCATTTGTAGAAGGCTCCCTGAGACTCCTGCAGCAGTCGACCAAGCCCAAGGACATAATTGAATCTGGAGAGTCCTGGGGCCTTGTTTTGAAAAAGACTTGAAATACACATAGGAAGAAAGGCATAAAAATAAATGTTCACTTGTCTCTGCTGTGAGTATGTGTTCCAACTTTTCAGTGATGGCTTTGAGAATTCTCAAACTTGACTGGCTCTAAGTGTATCTGGTGGCTTTTGTATCGTAACCTGAAACTGGCTTAGTACTTTTTCCTAAAAGCTCAGGATTTGAGAATGAggaccccttcgccaggaaaacatgtatacactcaaaattttgcttgcagttctagggtgtttagacccTTCTCAGATACCTGTGCATCTTATGGGttttgtttttctctttgagacagtctcaccctgttgcccaggctggagcgcagtggcatgatctcagctcattgcagcctccacctcctgggttcaagtgattctgcctcagccccttgatcagctgggattacatgcatgtaccaccacacccagctaattcttgtatttttagtagagatggagacagagtttcaccatgtaggccaggctagtctcaaactcctgacctcaagtgatccacaagcctgggcctcccaaagtgctgggattacaggcatgagcaactgcgcccagcTCTTGTGTACCTTATGTGAGGAAGTCCTGCTCAATCAGGATCGGTCACGCAGGCCCTGATCTTGCTACTCTGGTTCCATGTCCTATGGAAGACCAAAGTTTACCAAGATAGATTTTTCCCTTCATAGTGGCAGATAGTGTTAACCCCTGCACCATCTGTAACTCAGAAATCCCCACCATTTCTTCCCCTGGGCTTCAGAATAGAATTGCCTGGTTTCTCTGATGATCAGCATGGTTCCTTAAAACCCAAATCAGCAAGGAATGAACAATTTTGTTTGGCATGGATGAAATTAGCACTGTTTGGCTCGTTAGGCCCCAGGCAGGCAGGCACCTTAATTTTTTCCTTGCATATTCTAGTCTTCAGAAGCATTGCCTTTTGTCCTACTGGTAGTGACATAGACCAATAACAGGGCATCTGGGGATTTTAATCCTGAAAACAGTGAGTCTGATACTGCTTGTGTTTTTCATCAGTGTCCACCCCAAGTGGGTCTTCCTGCTATTCTCTTCACTTAGTTGCCCCTCACTTGCCATCTGAGCAATTGGCAAGGATGTGCCAGGCCTAGGTTAAACTTGGAAACATGCTTGACCATTCTATTCCCTGGTCCTTTAAGATCAGTTTGGCTGCAATTTTGGCTCCTTGGACCCTCAAGCATAGCTGGTAAATCAAGTTAGAGATGTAACTGCCTTAAAACATGCCAGCTTAggctgggcacggtggctcacacctgtaatctcaacacttcaggaggctgaggcaggcagatcacttgaggtcaggagttcgagaccagcctgaccaacatggagaaattctgtccctactgaaaatacaaaattagccggatgtggtggtgcatgcctgtaatcccagctacttgggaggctgaggcaagagaattgcttgaacccagggaggcagaggttgcagtgagccgagatcacaccattgcactccaccttgggcaacaaaagcaaaactctgtctcaaaaaaaaaaaaaaaaaaaGTGCCAGCGTATGAGGTAATTAGATTGGTTCTCTCCAGAGGTAACCTGCCAAGAAGAGATGCTATAGATGTTACTCCTATACTGTAAAACATTGTGAAATCAGATTACTTTAAAATGATGTATTACAAAGTTATGCAAAAAAGCAGTTGTGACTATGGAAGCCCAAGGCTTATATCCCAGCTCTGTCTTACACTAAATATGGGTACAGTgtttccactctgtccataaaatgggagctaatattctccaacctgtgtgcctgacatgatggttaaagggattaaacaaaacaatagtttgtaatttattctgtcagagcaaactgctggtaaataaaagggactaAGTTGACGAAAAATAAATTTTAAAAAACCTAATAAAACAAGTTTGTAATTTATAATTGTATACAAATAAAAGATGTTACAAAAATTGCGCACTTA

>NM_198486.5 

GTAGCTAGGAGCGGACGCCATAGGTGCATTGTGGGAAGCACTTTGCTGTCCACAGCCAGGCCGCTTGTGATGAAACTGTAACTTACAAGAAAAGGGCTGGGTTTTGAAAATAACACAGGCTCTAAAAACCCTAAGAAGCGGTGCAACTTTTGGCAGGAATCGGGGTTAGCGGGACCTCAAGGGCTCACTGCGGCTAAGTGAACGCTGACTGGTCCTCCAGCGTGAGCTAGAACAGACGTCTCTATGGTCAAGTAAACAGAGCGTGTGCTGTCTTCCCCATGTGGTGGGGTTGCGCATGATCAGTAGCTGCACCACTAGAAAGATGGCGGAGCAAGAGCAAAGAAAAATCCCTTTGGTTCCAGAAAATCTCCTGAAAAAGAGGAAGGCTTATCAAGCCCTCAAAGCCACCCAGGCAAAGCAGGCACTTTTGGCAAAGAAGGAGCAGAAGAAAGGAAAAGGGCTCAGGTTTAAGCGACTGGAATCATTCCTACATGATTCCTGGCGGCAGAAACGTGACAAGGTGCGTCTCAGACGACTAGAAGTGAAACCTCATGCCTTGGAATTGCCAGATAAACATTCCTTGGCCTTTGTTGTACGCATCGAAAGGATTGACGGCGTGAGTTTACTGGTGCAGAGAACCATTGCAAGACTTCGCCTAAAGAAAATTTTTAGTGGTGTCTTTGTAAAAGTCACCCCCCAGAATCTAAAAATGCTGCGTATAGTGGAACCTTATGTGACCTGGGGATTTCCAAATCTGAAGTCTGTCCGAGAACTCATTTTGAAACGTGGACAAGCCAAGGTCAAGAATAAGACCATCCCTCTGACAGACAATACAGTGATTGAGGAGCACCTGGGGAAGTTTGGCGTCATTTGCTTGGAAGACCTCATTCATGAAATTGCCTTCCCAGGGAAGCATTTCCAGGAGATCTCATGGTTCTTGTGCCCTTTCCACCTCTCAGTGGCCCGTCATGCTACCAAAAATAGAGTGGGCTTCCTCAAGGAGATGGGCACACCTGGCTATCGGGGTGAACGCATCAATCAGCTCATCCGTCAGCTGAACTAGACCCAGGTGCCAAACTGCGGTAAATTTTTTATCAGTGAAGTGGAAGCATGTGTTTTGTTTTGGAAATTTTTATCAAGTATCTTCAGAGAAGATTATTTCCTGCTTTATCTTCAGAAACTGGAAAGGGTCAAAGAAAAGACAGTAGCTggccggtcgtggtggctcatgcctgtaatcccaacacttagggaggctgaggtgggcagatcacctgaggttgggagttcgagaccagcctgaccaacatggagaaatgccatctctactaaaaatacaaaaattagccgggcatggtggcacgtgcctgtaatcccagctactcaggaggctgaggcaggagaatcgcttgaacctgggaggtggaagttgcagtgagctgagatcacgccattgcactccagcctgggcaacaagcgaaactctgtctcaaaaaaaaagaaaaGACAGTAGCATATGTTCATGTCAAGCACCTCTCATCACAGTCGAGTTCCAAGGAAAAATTCCAGTGTTTTCTGCATTGGGTGCTGTGTCATCTGAAATCGGCACATTCCATGGAGGAAGGAGTCCTGCTTTGTTGCATGTATCCTAGGGTTTAATGTTGGTAAATGAGTCACTCTAGCATTTGTAGAAGGCTCCCTGAGACTCCTGCAGCAGTCGACCAAGCCCAAGGACATAATTGAATCTGGAGAGTCCTGGGGCCTTGTTTTGAAAAAGACTTGAAATACACATAGGAAGAAAGGCATAAAAATAAATGTTCACTTGTCTCTGCTGTGAGTATGTGTTCCAACTTTTCAGTGATGGCTTTGAGAATTCTCAAACTTGACTGGCTCTAAGTGTATCTGGTGGCTTTTGTATCGTAACCTGAAACTGGCTTAGTACTTTTTCCTAAAAGCTCAGGATTTGAGAATGAggaccccttcgccaggaaaacatgtatacactcaaaattttgcttgcagttctagggtgtttagacccTTCTCAGATACCTGTGCATCTTATGGGttttgtttttctctttgagacagtctcaccctgttgcccaggctggagcgcagtggcatgatctcagctcattgcagcctccacctcctgggttcaagtgattctgcctcagccccttgatcagctgggattacatgcatgtaccaccacacccagctaattcttgtatttttagtagagatggagacagagtttcaccatgtaggccaggctagtctcaaactcctgacctcaagtgatccacaagcctgggcctcccaaagtgctgggattacaggcatgagcaactgcgcccagcTCTTGTGTACCTTATGTGAGGAAGTCCTGCTCAATCAGGATCGGTCACGCAGGCCCTGATCTTGCTACTCTGGTTCCATGTCCTATGGAAGACCAAAGTTTACCAAGATAGATTTTTCCCTTCATAGTGGCAGATAGTGTTAACCCCTGCACCATCTGTAACTCAGAAATCCCCACCATTTCTTCCCCTGGGCTTCAGAATAGAATTGCCTGGTTTCTCTGATGATCAGCATGGTTCCTTAAAACCCAAATCAGCAAGGAATGAACAATTTTGTTTGGCATGGATGAAATTAGCACTGTTTGGCTCGTTAGGCCCCAGGCAGGCAGGCACCTTAATTTTTTCCTTGCATATTCTAGTCTTCAGAAGCATTGCCTTTTGTCCTACTGGTAGTGACATAGACCAATAACAGGGCATCTGGGGATTTTAATCCTGAAAACAGTGAGTCTGATACTGCTTGTGTTTTTCATCAGTGTCCACCCCAAGTGGGTCTTCCTGCTATTCTCTTCACTTAGTTGCCCCTCACTTGCCATCTGAGCAATTGGCAAGGATGTGCCAGGCCTAGGTTAAACTTGGAAACATGCTTGACCATTCTATTCCCTGGTCCTTTAAGATCAGTTTGGCTGCAATTTTGGCTCCTTGGACCCTCAAGCATAGCTGGTAAATCAAGTTAGAGATGTAACTGCCTTAAAACATGCCAGCTTAggctgggcacggtggctcacacctgtaatctcaacacttcaggaggctgaggcaggcagatcacttgaggtcaggagttcgagaccagcctgaccaacatggagaaattctgtccctactgaaaatacaaaattagccggatgtggtggtgcatgcctgtaatcccagctacttgggaggctgaggcaagagaattgcttgaacccagggaggcagaggttgcagtgagccgagatcacaccattgcactccaccttgggcaacaaaagcaaaactctgtctcaaaaaaaaaaaaaaaaaaaGTGCCAGCGTATGAGGTAATTAGATTGGTTCTCTCCAGAGGTAACCTGCCAAGAAGAGATGCTATAGATGTTACTCCTATACTGTAAAACATTGTGAAATCAGATTACTTTAAAATGATGTATTACAAAGTTATGCAAAAAAGCAGTTGTGACTATGGAAGCCCAAGGCTTATATCCCAGCTCTGTCTTACACTAAATATGGGTACAGTgtttccactctgtccataaaatgggagctaatattctccaacctgtgtgcctgacatgatggttaaagggattaaacaaaacaatagtttgtaatttattctgtcagagcaaactgctggtaaataaaagggactaAGTTGACGAAAAATAAATTTTAAAAAACCTAATAAAACAAGTTTGTAATTTATAATTGTATACAAATAAAAGATGTTACAAAAATTGCGCACTTA

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