RCPedia: Rtcs

Summary

Retrocopy Name	GOLGA5P1	Plot displaying the genomic locations of a retrocopy (in chr5) and its respective parental gene (in chr14). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr5:39168833-39169562 UCSC
Coordinates (T2T)	chr5:39418360-39419089 UCSC
Coordinates (hg19)	chr5:39168935-39169664 UCSC
Strand	-
Parental Sequence	NM_005113.4
Parental seq. overlap	683 bp
Parental seq. overlap (%)	23.7%
Genomic Region	Intragenic (FYB1)
Retrocopy Summary	GOLGA5P1, located on chr5:39168833-39169562, is a retrocopy of the parental gene GOLGA5. 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	GOLGA5
Full Name	golgin A5
Also known as	GOLIM5\|RFG5\|ret-II
Coordinate	chr14:92794305-92839947
Strand	+
Gene summary	The Golgi apparatus, which participates in glycosylation and transport of proteins and lipids in the secretory pathway, consists of a series of stacked cisternae (flattened membrane sacs). Interactions between the Golgi and microtubules are thought to be important for the reorganization of the Golgi after it fragments during mitosis. This gene encodes one of the golgins, a family of proteins localized to the Golgi. This protein is a coiled-coil membrane protein that has been postulated to play a role in vesicle tethering and docking. Translocations involving this gene and the ret proto-oncogene have been found in tumor tissues; the chimeric sequences have been designated RET-II and PTC5. A pseudogene of this gene is located on the short arm of chromosome 5. [provided by RefSeq, Jul 2013]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	GOLGA5P1
Bonobo	Pan paniscus	GOLGA5P1
Gorilla	Gorilla gorilla	GOLGA5P1
Orangutan	Pongo abelii	GOLGA5P1
Gibbon	Nomascus leucogenys	GOLGA5P1
Green monkey	Chlorocebus sabaeus	GOLGA5P1
Crab-eating macaque	Macaca fascicularis	GOLGA5P1
Rhesus	Macaca mulatta	GOLGA5P1
Baboon	Papio anubis	GOLGA5P1
Golden snub-nosed monkey	Rhinopithecus roxellana	GOLGA5P1
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

The Genotype-Tissue Expression project - (GTEx)

Related Sequence

>GOLGA5P1
CTCCTTGGTCTTTCAACTGGAGCACCTCAAACAGCAGATGGACTCTGCCTCTGGAAGTAGTAGTAACGGGTCTTCGATTAATATGTCTGAAATTGTCAATGGTGAAGGCACTCTTCTGTGAAATGTTCCTGTTCTTTTTAATGGCACAGAAACTAATCTGGCAGGAATGTACGGAAAAATTCACAAAGCTAGTTCAATTGACCGGTTTAGTATTCGTCTGGGAATTTTTCTCCAAAGATACCCCATAGCATGAGTTTTTGTGATTATATATATGGCTTGGCTTCACCTCTGGGTCATGATTGTTCTGTTGACTTATACACCAGAAATGCACCACGACCAACCATATGGCAAATGAACTGAGCCCAGATGTTGCAATGATTAGTTGTCTTTTTCTAAACTTGGGATCTGCAAGAAGGCCAATTGCCTAAAATTTCTGAGAATGTGCACAAGATTATTTTATCACTACAAGCTTTTAACTTTTTAAGTTATTATGCAAGTATTCTGCTACCTAAATCTTCCTATTTCCTTTAAATGGTAAGAGTTTCTAAAAGAGACAATAATTTAACAAGCTCAACTCTGCTTTTTCTGAGTTCAGTGGTCCTAATATACATGTAGAGAAAGATGCTGGTGGTGTTCACCTCTGTACAGACCATCTATATGTTAGGTGACATTGATAATGGGTTACAATCAGGGAAACTAATTGTATTTAGTGACAAAAATAAAAAGTTTC

>NM_005113.4
GCTTCCCTTCCACGTCTCCCGGAAGCGGTAGCAGGGCCCCGGCGGGTCGGGGAGGAGGTTTACTCAGCTTGGGCCCCCTCCGGGCCAGCCGCCGAGGGGGCGCGGCCCAGGACGGCGGCTAGGCCGTAGTGCAGCCTCTCCGGAGTCCTCAGGTTTGCCAATAGGATTATCCTGCTGCCATCATGTCTTGGTTTGTTGATCTTGCTGGAAAGGCAGAAGATCTTTTAAACCGAGTTGATCAAGGGGCTGCAACAGCTCTCAGTAGGAAAGACAATGCCAGCAACATATATAGCAAAAATACTGACTATACTGAACTTCACCAGCAAAATACAGATTTGATATATCAGACTGGACCTAAATCTACGTATATTTCATCAGCAGCTGATAACATTCGAAATCAAAAAGCCACCATCTTAGCTGGCACTGCAAATGTGAAAGTAGGATCTCGGACACCAGTAGAGGCCTCTCATCCTGTTGAAAATGCATCTGTTCCTAGGCCTTCATCCCATTTTGTGCGAAGAAAAAAGTCAGAACCTGATGATGAGCTGCTGTTTGATTTTCTTAATAGTTCACAGAAGGAGCCTACCGGGAGGGTGGAAATCAGAAAGGAAAAAGGCAAGACACCTGTCTTTCAGAGCTCTCAGACATCAAGTGTCAGTTCTGTGAACCCCAGTGTAACCACCATCAAAACCATTGAAGAAAATTCTTTTGGGAGCCAAACCCACGAAGCTGCCAGTAACTCAGATTCTAGCCATGAAGGTCAAGAGGAATCTTCAAAGGAAAATGTGTCATCAAATGCTGCCTGCCCTGACCACACCCCAACACCTAATGATGATGGCAAATCACATGAACTGTCTAACCTTCGACTGGAGAATCAGCTGCTGAGGAATGAAGTTCAGTCTTTAAATCAAGAAATGGCCTCGTTACTCCAAAGATCCAAAGAGACTCAAGAAGAATTAAACAAAGCAAGAGCAAGAGTTGAAAAGTGGAATGCTGACCATTCAAAGAGTGATCGAATGACTCGAGGACTCCGAGCCCAAGTAGATGACCTGACTGAAGCTGTGGCTGCAAAGGATTCCCAGCTGGCTGTACTGAAAGTGAGACTCCAGGAAGCTGACCAGCTACTGAGTACTCGCACAGAAGCATTAGAAGCCTTACAGAGTGAAAAATCACGAATAATGCAGGATCAAAGTGAAGGTAACAGCCTGCAGAATCAAGCTCTGCAGACTTTTCAGGAGAGACTGCATGAAGCGGATGCCACTCTGAAGAGAGAGCAGGAGAGCTATAAACAGATGCAGAGCGAGTTTGCTGCACGCCTTAATAAAGTGGAAATGGAACGTCAGAATTTAGCAGAAGCAATTACACTGGCCGAAAGAAAATACTCAGATGAGAAGAAGAGGGTTGATGAACTGCAGCAGCAAGTCAAGCTGTATAAGTTGAACTTGGAGTCCTCTAAGCAGGAATTAATTGACTACAAGCAAAAAGCTACTAGAATACTGCAATCTAAGGAAAAATTGATTAACAGCTTGAAAGAAGGCTCTGGTTTTGAAGGCCTAGATAGCAGCACTGCCAGTAGCATGGAGCTGGAAGAACTTCGGCATGAGAAAGAGATGCAGAGGGAGGAAATACAGAAGCTGATGGGCCAGATACATCAGCTCAGATCCGAATTACAGGATATGGAGGCACAGCAAGTTAATGAAGCAGAATCAGCAAGAGAACAGTTACAGGATCTGCATGACCAAATAGCTGGGCAGAAAGCATCCAAACAAGAACTAGAGACAGAACTGGAGCGACTGAAGCAGGAGTTCCACTATATAGAAGAAGATCTTTATCGAACAAAGAACACATTGCAAAGCAGAATTAAAGATCGAGACGAAGAAATTCAAAAACTCAGGAATCAGCTTACCAATAAAACTTTAAGCAATAGCAGTCAGTCTGAGTTAGAAAATCGACTCCATCAGCTAACAGAGACTCTCATCCAGAAACAGACCATGCTGGAGAGTCTCAGCACAGAAAAGAACTCCCTGGTCTTTCAACTGGAGCGCCTCGAACAGCAGATGAACTCCGCCTCTGGAAGTAGTAGTAATGGGTCTTCGATTAATATGTCTGGAATTGACAATGGTGAAGGCACTCGTCTGCGAAATGTTCCTGTTCTTTTTAATGACACAGAAACTAATCTGGCAGGAATGTACGGAAAAGTTCGCAAAGCTGCTAGTTCAATTGATCAGTTTAGTATTCGCCTGGGAATTTTTCTCCGAAGATACCCCATAGCGCGAGTTTTTGTAATTATATATATGGCTTTGCTTCACCTCTGGGTCATGATTGTTCTGTTGACTTACACACCAGAAATGCACCACGACCAACCATATGGCAAATGAACCAAGCCCAGTTGTTGCAGTGATTGGTTGTCTTTTTCTAGACTTGGGATCTGCAAGAAGGCCAATTGCCTAAAATTTCTGAGAACAGTGCACAAGATTATTTTATCACTACAAGCTTTTAACTTTTTAAGTTATTGTACAAGTATTCTACCTAAATCTTCCAATTTCCTTTAAATGGTAAGAGTTTCTAAAACAGACAATAATTTAACAAGCTCAGCTCTGCTTTATCTGAGTTTAGTGGTCCTAATATATATGTAGAGAAAGATGGTGGGGTTGTTCACCTCTGTACAGACCATCTGTATGTTAGGTGACATTGATTATGGGTTATAATCAGGGAAACTAATTGTATTTAGTGACAAAAATAAAAAGTTTTTTTTTATAATTCAGTCTGCTTTTGGATTTTCATATATTTAACTTTGCAAAAAGATTTACTTTGTACATGTTACAGGCTTGATTGGTGTAAATCTTTTTATAAATACATAAATAAAAGAAAAATATGCA

>NM_005113.4 

GCTTCCCTTCCACGTCTCCCGGAAGCGGTAGCAGGGCCCCGGCGGGTCGGGGAGGAGGTTTACTCAGCTTGGGCCCCCTCCGGGCCAGCCGCCGAGGGGGCGCGGCCCAGGACGGCGGCTAGGCCGTAGTGCAGCCTCTCCGGAGTCCTCAGGTTTGCCAATAGGATTATCCTGCTGCCATCATGTCTTGGTTTGTTGATCTTGCTGGAAAGGCAGAAGATCTTTTAAACCGAGTTGATCAAGGGGCTGCAACAGCTCTCAGTAGGAAAGACAATGCCAGCAACATATATAGCAAAAATACTGACTATACTGAACTTCACCAGCAAAATACAGATTTGATATATCAGACTGGACCTAAATCTACGTATATTTCATCAGCAGCTGATAACATTCGAAATCAAAAAGCCACCATCTTAGCTGGCACTGCAAATGTGAAAGTAGGATCTCGGACACCAGTAGAGGCCTCTCATCCTGTTGAAAATGCATCTGTTCCTAGGCCTTCATCCCATTTTGTGCGAAGAAAAAAGTCAGAACCTGATGATGAGCTGCTGTTTGATTTTCTTAATAGTTCACAGAAGGAGCCTACCGGGAGGGTGGAAATCAGAAAGGAAAAAGGCAAGACACCTGTCTTTCAGAGCTCTCAGACATCAAGTGTCAGTTCTGTGAACCCCAGTGTAACCACCATCAAAACCATTGAAGAAAATTCTTTTGGGAGCCAAACCCACGAAGCTGCCAGTAACTCAGATTCTAGCCATGAAGGTCAAGAGGAATCTTCAAAGGAAAATGTGTCATCAAATGCTGCCTGCCCTGACCACACCCCAACACCTAATGATGATGGCAAATCACATGAACTGTCTAACCTTCGACTGGAGAATCAGCTGCTGAGGAATGAAGTTCAGTCTTTAAATCAAGAAATGGCCTCGTTACTCCAAAGATCCAAAGAGACTCAAGAAGAATTAAACAAAGCAAGAGCAAGAGTTGAAAAGTGGAATGCTGACCATTCAAAGAGTGATCGAATGACTCGAGGACTCCGAGCCCAAGTAGATGACCTGACTGAAGCTGTGGCTGCAAAGGATTCCCAGCTGGCTGTACTGAAAGTGAGACTCCAGGAAGCTGACCAGCTACTGAGTACTCGCACAGAAGCATTAGAAGCCTTACAGAGTGAAAAATCACGAATAATGCAGGATCAAAGTGAAGGTAACAGCCTGCAGAATCAAGCTCTGCAGACTTTTCAGGAGAGACTGCATGAAGCGGATGCCACTCTGAAGAGAGAGCAGGAGAGCTATAAACAGATGCAGAGCGAGTTTGCTGCACGCCTTAATAAAGTGGAAATGGAACGTCAGAATTTAGCAGAAGCAATTACACTGGCCGAAAGAAAATACTCAGATGAGAAGAAGAGGGTTGATGAACTGCAGCAGCAAGTCAAGCTGTATAAGTTGAACTTGGAGTCCTCTAAGCAGGAATTAATTGACTACAAGCAAAAAGCTACTAGAATACTGCAATCTAAGGAAAAATTGATTAACAGCTTGAAAGAAGGCTCTGGTTTTGAAGGCCTAGATAGCAGCACTGCCAGTAGCATGGAGCTGGAAGAACTTCGGCATGAGAAAGAGATGCAGAGGGAGGAAATACAGAAGCTGATGGGCCAGATACATCAGCTCAGATCCGAATTACAGGATATGGAGGCACAGCAAGTTAATGAAGCAGAATCAGCAAGAGAACAGTTACAGGATCTGCATGACCAAATAGCTGGGCAGAAAGCATCCAAACAAGAACTAGAGACAGAACTGGAGCGACTGAAGCAGGAGTTCCACTATATAGAAGAAGATCTTTATCGAACAAAGAACACATTGCAAAGCAGAATTAAAGATCGAGACGAAGAAATTCAAAAACTCAGGAATCAGCTTACCAATAAAACTTTAAGCAATAGCAGTCAGTCTGAGTTAGAAAATCGACTCCATCAGCTAACAGAGACTCTCATCCAGAAACAGACCATGCTGGAGAGTCTCAGCACAGAAAAGAACTCCCTGGTCTTTCAACTGGAGCGCCTCGAACAGCAGATGAACTCCGCCTCTGGAAGTAGTAGTAATGGGTCTTCGATTAATATGTCTGGAATTGACAATGGTGAAGGCACTCGTCTGCGAAATGTTCCTGTTCTTTTTAATGACACAGAAACTAATCTGGCAGGAATGTACGGAAAAGTTCGCAAAGCTGCTAGTTCAATTGATCAGTTTAGTATTCGCCTGGGAATTTTTCTCCGAAGATACCCCATAGCGCGAGTTTTTGTAATTATATATATGGCTTTGCTTCACCTCTGGGTCATGATTGTTCTGTTGACTTACACACCAGAAATGCACCACGACCAACCATATGGCAAATGAACCAAGCCCAGTTGTTGCAGTGATTGGTTGTCTTTTTCTAGACTTGGGATCTGCAAGAAGGCCAATTGCCTAAAATTTCTGAGAACAGTGCACAAGATTATTTTATCACTACAAGCTTTTAACTTTTTAAGTTATTGTACAAGTATTCTACCTAAATCTTCCAATTTCCTTTAAATGGTAAGAGTTTCTAAAACAGACAATAATTTAACAAGCTCAGCTCTGCTTTATCTGAGTTTAGTGGTCCTAATATATATGTAGAGAAAGATGGTGGGGTTGTTCACCTCTGTACAGACCATCTGTATGTTAGGTGACATTGATTATGGGTTATAATCAGGGAAACTAATTGTATTTAGTGACAAAAATAAAAAGTTTTTTTTTATAATTCAGTCTGCTTTTGGATTTTCATATATTTAACTTTGCAAAAAGATTTACTTTGTACATGTTACAGGCTTGATTGGTGTAAATCTTTTTATAAATACATAAATAAAAGAAAAATATGCA

Publications

PMID - Link	Title
No publications available for this retrocopy