RCPedia: Rtcs

Summary

Retrocopy Name	SIRT5P1	Plot displaying the genomic locations of a retrocopy (in chr1) and its respective parental gene (in chr6). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr1:68043727-68044570 UCSC
Coordinates (T2T)	chr1:67921189-67922032 UCSC
Coordinates (hg19)	chr1:68509410-68510253 UCSC
Strand	+
Parental Sequence	NM_001376799.1
Parental seq. overlap	720 bp
Parental seq. overlap (%)	21.1%
Genomic Region	Intergenic
Retrocopy Summary	SIRT5P1, located on chr1:68043727-68044570, is a retrocopy of the parental gene SIRT5. 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	SIRT5
Full Name	sirtuin 5
Also known as	SIR2L5
Coordinate	chr6:13574217-13615158
Strand	+
Gene summary	This gene encodes a member of the sirtuin family of proteins, homologs to the yeast Sir2 protein. Members of the sirtuin family are characterized by a sirtuin core domain and grouped into four classes. The functions of human sirtuins have not yet been determined; however, yeast sirtuin proteins are known to regulate epigenetic gene silencing and suppress recombination of rDNA. Studies suggest that the human sirtuins may function as intracellular regulatory proteins with mono-ADP-ribosyltransferase activity. The protein encoded by this gene is included in class III of the sirtuin family. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Jul 2010]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	SIRT5P1
Bonobo	Pan paniscus	SIRT5P1
Gorilla	Gorilla gorilla	SIRT5P1
Orangutan	Pongo abelii	SIRT5P1
Gibbon	Nomascus leucogenys	SIRT5P1
Green monkey	Chlorocebus sabaeus	SIRT5P1
Crab-eating macaque	Macaca fascicularis	SIRT5P1
Rhesus	Macaca mulatta	SIRT5P1
Baboon	Papio anubis	SIRT5P1
Golden snub-nosed monkey	Rhinopithecus roxellana	SIRT5P1
Marmoset	Callithrix jacchus	SIRT5P1
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

>SIRT5P1
ACAGAATATCCATGGGCGGCACCCAAGGCTGGCGCCAAGAACCTTCTGGAAATCCACTGTAGCTTATTTAAACTCCATGTACCTCTTGTGGAGTCGTGTCTGAGAATTATGAGAGTCGGTTGGTCCACCTTTATCAGGAGAAGGTGCCCCAGGACCTGGAACTCAAGATGCCAGAATCCCAGTTGGGAAACTTGCCGGGTGTGAGAGGCAGAGAGCAGGGGCTTGCCGCAACCTCACGCCCTGTGGTTTGGCAAAAACTTGGATCCCGCCTTTCTGGAGGAGGTTGACAGACAGCTCACCCTTGTGACTATGTCTAGTGGCACATACTCCCCCTGTGGTGTACCCCGCAGCTGTGTTTGCCCACCAGATGTCTGCCAAGGGAGTGCCAGTGACCGAATTTAACATGGAGACCACCTCAGCCATGAGAAGATTCAGGTTTCATTTCCAGGGACCCTGTGGTAGGATGCTTCCTGAACCCCTTGCTGGTCATGAAAATGAAACTGTTTCTTAAGCATCCTGGGAAGAAAGAAATTATAGTATATCTAAGTATGTCTAGGTGGCGAGCTGATATTGGATGATCCAAAAATATTCTGATTCCCTGGCTGAAATCCAACCTGTTGATAAGTGTTTAGGGCTCAGAAGTAGCAAGAGCAAAGGTATTTAGAAGTCAGAGAACTGTAAAGTTAATGCATGTTATTTGATTTGAACTGAAACATAAGAGACCTTTGATGTGTTTAGTTGGTTATTGGGAGGGAAAAACGTTGTAATTAGATTGTCTTTAAAAATGTAATTATTCTGATTATATTTTTCCTATTTGGGCAAAGATAGAAGTAGAGGGGTAAAA

>NM_001376799.1
CTCCTCTCCAGCCGGCGCGCCCGCCTCCCGCAGTAAATGGAAATGTTTTCTAACATATAAAAACCTACAGAAGAAGAAAATAATTTTCTGGATCAAATTAGAAGTCTGTATTATATTGATGTCTCCAGATTCAAATATATTAGAAAGCAGCCGTGGAGACAACCATCTTCATTTTGGGAGAAATAACTAAAGCCCGCCTCAAGCATTAGAACTACAGACAAACCCTGATGCGACCTCTCCAGATTGTCCCAAGTCGATTGATTTCCCAGCTATATTGTGGCCTGAAGCCTCCAGCGTCCACACGAAACCAGATTTGCCTGAAAATGGCTCGGCCAAGTTCAAGTATGGCAGATTTTCGAAAGTTTTTTGCAAAAGCAAAGCACATAGTCATCATCTCAGGAGCTGGTGTTAGTGCAGAAAGTGGTGTTCCGACCTTCAGAGGAGCTGGAGGTTATTGGAGAAAATGGCAAGCCCAGGACCTGGCGACTCCCCTGGCCTTTGCCCACAACCCGTCCCGGGTGTGGGAGTTCTACCACTACCGGCGGGAGGTCATGGGGAGCAAGGAGCCCAACGCCGGGCACCGCGCCATAGCCGAGTGTGAGACCCGGCTGGGCAAGCAGGGCCGGCGAGTCGTGGTCATCACCCAGAACATCGATGAGCTGCACCGCAAGGCTGGCACCAAGAACCTTCTGGAGATCCATGGTAGCTTATTTAAAACTCGATGTACCTCTTGTGGAGTTGTGGCTGAGAATTACAAGAGTCCAATTTGTCCAGCTTTATCAGGAAAAGGTGCTCCAGAACCTGGAACTCAAGATGCCAGCATCCCAGTTGAGAAACTTCCCCGGTGTGAAGAGGCAGGCTGCGGGGGCTTGCTGCGACCTCACGTCGTGTGGTTTGGAGAAAACCTGGATCCTGCCATTCTGGAGGAGGTTGACAGAGAGCTCGCCCACTGTGATTTATGTCTAGTGGTGGGCACTTCCTCTGTGGTGTACCCAGCAGCCATGTTTGCCCCCCAGGTGGCTGCCAGGGGCGTGCCAGTGGCTGAATTTAACACGGAGACCACCCCAGCTACGAACAGATTCAGGTTTCATTTCCAGGGACCCTGTGGAACGACTCTTCCTGAAGCCCTTGCCTGTCATGAAAATGAAACTGTTTCTTAAGTGTCCTGGGGAAGAAAGAAATTACAGTATATCTAAGAACTAGGCCACACGCAGAGGAGAAATGGTCTTATGGGTGGTGAGCTGAGTACTGAACAATCTAAAAATAGCCTCTGATTCCCTCGCTGGAATCCAACCTGTTGATAAGTGATGGGGGTTTAGAAGTAGCAAAGAGCACCCACATTCAAAAGTCACAGAACTGGAAAGTTAATTCATATTATTTGGTTTGAACTGAAACGTGAGGTATCTTTGATGTGTATGGTTGGTTATTGGGAGGGAAAAATTTTGTAAATTAGATTGTCTAAAAAAAATAGTTATTCTGATTATATTTTTGTTATCTGGGCAAAGTAGAAGTCAAGGGGTAAAAACCCTACTATTCTGATTTTTGCACAAGTTTTAGTGGAAAATAAAATCACACTCTACAGTAGGTAATTTATTGTATAAAGACATTACCCCACGATATGGCTTTATTAGGGACtttttttttttttttttgagacagagtttcactcttgttgcccaggctggagtgcagtggtgcgatctcagctcacagcaacctccgcctcccgggttcaagagattctcctgcctcagcctcatgagtagctgggattacaggtatgtaccaccacacccagctaattttgtatttttagtagagacggggtttctccatgttggtcaggctggtcttaaactctcgacctcaggtgatctgcccgcctcggcctcccaaagtgctgagattacgggcatgagccaccgcacccggcTTACTGGGGGCTTTTTAACCTTGTTTGGCTACATTACCTCAGTGAACAAGGGGAAGCTCACAACAGGAACTCACACAAAGAAGGAAGAGAACAGTACCAACAAGGTAGAACATCACGATGAGAAGAAAGAATGATGCAAATATGTGGACCCCCAGGATAAACACAGCTGCCCAAAATTTAGCTCTGGCCCCCTTAGATGGGGGAAGTCAACAGTGAAGTGTTTCTCAGCATCATAAAGGCAGAAGCTGTGGTTCCTGTGGGGCCTGCCAACCGTTCCCAGATGCTGAACTCTGCTGGGAGTTTTTTCCATGGGACTTTAAAAAATGATGCCCTTAGgttgggccagacctctgttaacttcagtagggatggcaccaggttcaagaggccaaagaagagacctggagctagtgaaggaaacatagggtttatttggggaaccttacagggtggtccagtggccgcgggctggacagaactgcaaccacttataaaaagcatgcagtttacatagcactttcactcagcaccctcccctcagcagcctccacgtggcaaccctcacttcttaagttattgctgtcagatgcatctgccatacagggtcattctcaggggatgcttaagttatttctgtcaggtacatcttccatacaCTTTACTACCTTGGAGTAAAGTAGTAAGAATACAGCTTTTTCCTTAACCTTTACCAGCTAACTCAGTGCTTAGGGGCCTTGGAATGCCTGCTGTCCAGCAGGTGTCACAGGCCTGACTGGGAGGCATGGCCATTATCAACAGTGTATGAAGGTCACATATGGCTCCCTGAAGTGATtacatacttggaccacatcacctcagccccttgcaaaattgcatttaatgttacacccttggcttttgtagaaacaggcaacaagacactatcatataaaactttgtactgcattGCAAGGCATAACCTTTAATAAATCCCAGTGGTCCTTTGTGTAGGGAACGGGGATGCTCATAGCCTATGGGGCGGCTGGAGAACCAGTCAGGGACCCTGAGGGCTCGATGTACACTTTACATGGGTGGGCCAAGGAGTTTACACTGAGGGCACTGGTAATACCTGTAATAGTCTTATAGTACTTATAAAGCAGTTTTGCACATAAAATACCATCATGCACTTATAAGTTTGTTCTTGGGCTGCTCCAAGTTAACTTTATTCATTTTCCTAGTGTTAGTGTCTCAGGGAGTCTGATTATATTTTTGATTTGTAATTTCTATCTGACTAAGGCCTAGAGATTTCAAAACTGTTCTTTGCAATTCCTCTCATACTGAACCTCTGGTTCAGCAGCTTTTTTTGTTGTTGTTGTTTTCAAGTTTTATCATTTTTGTTCCTATTTGGTTTTGTCGTTTTTAAATTGAGAATTGCTTCTAAAACAGAAGACATGAAAAGAGAATTAAAAATACAATATATGTGTAAGATA

>NM_001376799.1 

CTCCTCTCCAGCCGGCGCGCCCGCCTCCCGCAGTAAATGGAAATGTTTTCTAACATATAAAAACCTACAGAAGAAGAAAATAATTTTCTGGATCAAATTAGAAGTCTGTATTATATTGATGTCTCCAGATTCAAATATATTAGAAAGCAGCCGTGGAGACAACCATCTTCATTTTGGGAGAAATAACTAAAGCCCGCCTCAAGCATTAGAACTACAGACAAACCCTGATGCGACCTCTCCAGATTGTCCCAAGTCGATTGATTTCCCAGCTATATTGTGGCCTGAAGCCTCCAGCGTCCACACGAAACCAGATTTGCCTGAAAATGGCTCGGCCAAGTTCAAGTATGGCAGATTTTCGAAAGTTTTTTGCAAAAGCAAAGCACATAGTCATCATCTCAGGAGCTGGTGTTAGTGCAGAAAGTGGTGTTCCGACCTTCAGAGGAGCTGGAGGTTATTGGAGAAAATGGCAAGCCCAGGACCTGGCGACTCCCCTGGCCTTTGCCCACAACCCGTCCCGGGTGTGGGAGTTCTACCACTACCGGCGGGAGGTCATGGGGAGCAAGGAGCCCAACGCCGGGCACCGCGCCATAGCCGAGTGTGAGACCCGGCTGGGCAAGCAGGGCCGGCGAGTCGTGGTCATCACCCAGAACATCGATGAGCTGCACCGCAAGGCTGGCACCAAGAACCTTCTGGAGATCCATGGTAGCTTATTTAAAACTCGATGTACCTCTTGTGGAGTTGTGGCTGAGAATTACAAGAGTCCAATTTGTCCAGCTTTATCAGGAAAAGGTGCTCCAGAACCTGGAACTCAAGATGCCAGCATCCCAGTTGAGAAACTTCCCCGGTGTGAAGAGGCAGGCTGCGGGGGCTTGCTGCGACCTCACGTCGTGTGGTTTGGAGAAAACCTGGATCCTGCCATTCTGGAGGAGGTTGACAGAGAGCTCGCCCACTGTGATTTATGTCTAGTGGTGGGCACTTCCTCTGTGGTGTACCCAGCAGCCATGTTTGCCCCCCAGGTGGCTGCCAGGGGCGTGCCAGTGGCTGAATTTAACACGGAGACCACCCCAGCTACGAACAGATTCAGGTTTCATTTCCAGGGACCCTGTGGAACGACTCTTCCTGAAGCCCTTGCCTGTCATGAAAATGAAACTGTTTCTTAAGTGTCCTGGGGAAGAAAGAAATTACAGTATATCTAAGAACTAGGCCACACGCAGAGGAGAAATGGTCTTATGGGTGGTGAGCTGAGTACTGAACAATCTAAAAATAGCCTCTGATTCCCTCGCTGGAATCCAACCTGTTGATAAGTGATGGGGGTTTAGAAGTAGCAAAGAGCACCCACATTCAAAAGTCACAGAACTGGAAAGTTAATTCATATTATTTGGTTTGAACTGAAACGTGAGGTATCTTTGATGTGTATGGTTGGTTATTGGGAGGGAAAAATTTTGTAAATTAGATTGTCTAAAAAAAATAGTTATTCTGATTATATTTTTGTTATCTGGGCAAAGTAGAAGTCAAGGGGTAAAAACCCTACTATTCTGATTTTTGCACAAGTTTTAGTGGAAAATAAAATCACACTCTACAGTAGGTAATTTATTGTATAAAGACATTACCCCACGATATGGCTTTATTAGGGACtttttttttttttttttgagacagagtttcactcttgttgcccaggctggagtgcagtggtgcgatctcagctcacagcaacctccgcctcccgggttcaagagattctcctgcctcagcctcatgagtagctgggattacaggtatgtaccaccacacccagctaattttgtatttttagtagagacggggtttctccatgttggtcaggctggtcttaaactctcgacctcaggtgatctgcccgcctcggcctcccaaagtgctgagattacgggcatgagccaccgcacccggcTTACTGGGGGCTTTTTAACCTTGTTTGGCTACATTACCTCAGTGAACAAGGGGAAGCTCACAACAGGAACTCACACAAAGAAGGAAGAGAACAGTACCAACAAGGTAGAACATCACGATGAGAAGAAAGAATGATGCAAATATGTGGACCCCCAGGATAAACACAGCTGCCCAAAATTTAGCTCTGGCCCCCTTAGATGGGGGAAGTCAACAGTGAAGTGTTTCTCAGCATCATAAAGGCAGAAGCTGTGGTTCCTGTGGGGCCTGCCAACCGTTCCCAGATGCTGAACTCTGCTGGGAGTTTTTTCCATGGGACTTTAAAAAATGATGCCCTTAGgttgggccagacctctgttaacttcagtagggatggcaccaggttcaagaggccaaagaagagacctggagctagtgaaggaaacatagggtttatttggggaaccttacagggtggtccagtggccgcgggctggacagaactgcaaccacttataaaaagcatgcagtttacatagcactttcactcagcaccctcccctcagcagcctccacgtggcaaccctcacttcttaagttattgctgtcagatgcatctgccatacagggtcattctcaggggatgcttaagttatttctgtcaggtacatcttccatacaCTTTACTACCTTGGAGTAAAGTAGTAAGAATACAGCTTTTTCCTTAACCTTTACCAGCTAACTCAGTGCTTAGGGGCCTTGGAATGCCTGCTGTCCAGCAGGTGTCACAGGCCTGACTGGGAGGCATGGCCATTATCAACAGTGTATGAAGGTCACATATGGCTCCCTGAAGTGATtacatacttggaccacatcacctcagccccttgcaaaattgcatttaatgttacacccttggcttttgtagaaacaggcaacaagacactatcatataaaactttgtactgcattGCAAGGCATAACCTTTAATAAATCCCAGTGGTCCTTTGTGTAGGGAACGGGGATGCTCATAGCCTATGGGGCGGCTGGAGAACCAGTCAGGGACCCTGAGGGCTCGATGTACACTTTACATGGGTGGGCCAAGGAGTTTACACTGAGGGCACTGGTAATACCTGTAATAGTCTTATAGTACTTATAAAGCAGTTTTGCACATAAAATACCATCATGCACTTATAAGTTTGTTCTTGGGCTGCTCCAAGTTAACTTTATTCATTTTCCTAGTGTTAGTGTCTCAGGGAGTCTGATTATATTTTTGATTTGTAATTTCTATCTGACTAAGGCCTAGAGATTTCAAAACTGTTCTTTGCAATTCCTCTCATACTGAACCTCTGGTTCAGCAGCTTTTTTTGTTGTTGTTGTTTTCAAGTTTTATCATTTTTGTTCCTATTTGGTTTTGTCGTTTTTAAATTGAGAATTGCTTCTAAAACAGAAGACATGAAAAGAGAATTAAAAATACAATATATGTGTAAGATA

Publications

PMID - Link	Title