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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name Trappc6bP3
Plot displaying the genomic locations of a retrocopy (in chr18) and its respective parental gene (in chr12). Each line represents a retrocopy.
Species Mus musculus
Coordinates chr18:66550393-66550871  UCSC
Strand +
Parental Sequence NM_030057.3
Parental seq. overlap 400 bp
Parental seq. overlap (%) 31.5%
Genomic Region Intergenic
Retrocopy Summary Trappc6bP3, located on chr18:66550393-66550871, is a retrocopy of the parental gene Trappc6b. 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 Trappc6b
Full Name trafficking protein particle complex 6B
Also known as 5830498C14Rik
Coordinate chr12:59089878-59108258
Strand -
Gene summary Predicted to be involved in endoplasmic reticulum to Golgi vesicle-mediated transport. Predicted to act upstream of or within nervous system development. Predicted to be located in Golgi apparatus and endoplasmic reticulum. Predicted to be part of TRAPP complex. Predicted to be active in cis-Golgi network and trans-Golgi network. Is expressed in ganglia; trigeminal nerve; and ventral grey horn. Orthologous to human TRAPPC6B (trafficking protein particle complex subunit 6B). [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Rat Rattus norvegicus Trappc6bP1
Human Homo sapiens Without Homology
Chimpanzee Pan troglodytes Without Homology
Bonobo Pan paniscus Without Homology
Gorilla Gorilla gorilla Without Homology
Orangutan Pongo abelii Without Homology
Gibbon Nomascus leucogenys Without Homology
Green monkey Chlorocebus sabaeus Without Homology
Crab-eating macaque Macaca fascicularis Without Homology
Rhesus Macaca mulatta Without Homology
Baboon Papio anubis Without Homology
Golden snub-nosed monkey Rhinopithecus roxellana Without Homology
Marmoset Callithrix jacchus Without Homology
Mouse lemur Microcebus murinus 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

>Trappc6bP3
GGGGAAATGGGAGATGAGGCGTTTGTTTTTGCTTCTCCATAACAAGATGGTGCCCGGAACATAGACAAGTCCGTCAAGCAGGCAGAAGTAGAAGATGGATGTATTACTAAACTGGAAAACAGCGTTTCAAGTGGGACAAAGATTGATAGGAAGGTTTACCGAAGATACTGCGAGATTCAAGGATGCATTAGAAATCATAAAGATCATATGTAAAGATTTTTGGACTACAGTATTCAAGAAATAAATTGGCCATCTAAGGACAAATCATCAGGGTGTGTATGTCCTTGAGGACAACAAATTTTGACTACTTAACTCGTCTGTAAGCAGGAAAAGAGTATTCAGAGCATGCATCAAAGTATCTAGCATTTACATGTAGCTTAATCAGAGGTGGCTTGTCAACCTTGGGAATAGAAAGTAGGGTAATACCTGAAGCATCTTCAGTGCCTGCCTGCAAGCTTCAGATGATGACACAGAGGCTG
>NM_030057.3
GGAAGTGGCTCAGGCTCCACGCCCAGCGCTATAGTCTTGGCAGAGTGTGGGGCTGTCACAGGGTCTCTAGGGCCCAGTGGCGGCGGCCCCGGGGAGGGGCGCGGTCCACGGCGGCCTTCCGCGGCCTTAGGACCCGGGTAGGCCGCTGAGCACGGCGTGCGGTGGGCGCGGGGTAACGGGAACCTCGAGTCCCGCACTGATCGGAGCCGACTCGGCGCTGGAGGGATCGGCGGGAAATGGCGGACGAGGCGTTGTTTTTGCTTCTCCATAACGAGATGGTGTCCGGAGTGTACAAGTCCGCCGAGCAGGGGGAAGTGGAAAATGGAAGGTGTGTTACTAAGCTGGAGAGCATGGGGTTCCGAGTGGGGCAAGGACTGATAGAAAGGTTTACGAAAGATACTGCAAGGTTCAAGGATGAATTAGACATCATGAAGTTCATCTGTAAAGATTTTTGGACTACAGTATTCAAGAAACAGATTGACAATCTGAGGACAAATCATCAGggcatATATGTACTTCAGGACAACAAATTTCGACTACTCATTCAGCTGTCTGCAGGAAAACAGTATTTAGAACATGCGTCCAAGtATCTAGCATTCACATGTGGCTTAATCAGAGGTGGTTTGTCGAACTTGGGAATAAAAAGTATTGTAACAGCTGAAGTCTCTTCAATGCCTGCCTGCAAATTTCAGGTGATGATACAGAAGCTGTAGAGCGAGCTGGCGACTCCTGGGCAGAGCGTTGCACATCCTGATTTCACCTCATCGTTGGTTATCTGCGTTGGAGCAAATCGTTATCTCACCAGAGTCACATAGACCAAATCAAAGTAGACACAGGTCCTTTGACCATGACAGAAACTGACTGACCTATTCAGTGATTTCAGAGAACTAGACACCAAGATGCAAGGCTCTTCATTTTAAACATCTTTATTTCCATAGGTGATTAGCATTTAACCATCAATAGGAAGTGAAACTCAGGGTGTGTTGAATTgctgtattaaaaaaaatgcaccaATCAGAATAGTTTGTGTTCAAATGACCAAAATTTGTTGAACTATAAATCTGTTTTAGttatttaaaaaagcaaaccacTATGTTAAATTAAgcttaatttttattgtattgcTTATAATTTATTTCTGTCGAGAGAATTCATATGCTTATGTAAGGATATCATTTAtacattgtgtatatatgtgtatatataaatacatgcattACTGTCTAAATtacttgaaagtttattttaatagACTTGAGTCCTTGA

Publications

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