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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name TRAPPC6AP1
Plot displaying the genomic locations of a retrocopy (in chr6) and its respective parental gene (in chr19). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr6:106944492-106944785  UCSC
Coordinates (T2T) chr6:108120584-108120877  UCSC
Strand +
Parental Sequence NM_001270891.2
Parental seq. overlap 246 bp
Parental seq. overlap (%) 32.4%
Genomic Region Intergenic
Retrocopy Summary TRAPPC6AP1, located on chr6:106944492-106944785, is a retrocopy of the parental gene TRAPPC6A. 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 TRAPPC6A
Full Name trafficking protein particle complex subunit 6A
Also known as TRS33
Coordinate chr19:45162933-45179266
Strand -
Gene summary This gene encodes a component of the trafficking protein particle complex, which tethers transport vesicles to the cis-Golgi membrane. Loss of expression of the related gene in mouse affects coat and eye pigmentation, suggesting that the encoded protein may be involved in melanosome biogenesis. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Aug 2012]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes TRAPPC6AP1
Bonobo Pan paniscus TRAPPC6AP1
Orangutan Pongo abelii TRAPPC6AP1
Gibbon Nomascus leucogenys TRAPPC6AP1
Green monkey Chlorocebus sabaeus TRAPPC6AP1
Crab-eating macaque Macaca fascicularis RPS12P9
Rhesus Macaca mulatta TRAPPC6AP1
Baboon Papio anubis TRAPPC6AP1
Marmoset Callithrix jacchus TRAPPC6AP1
Gorilla Gorilla gorilla Without Homology
Golden snub-nosed monkey Rhinopithecus roxellana 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

>TRAPPC6AP1
CGAGTTTCTACACATGGAGATGGAAGCAGAGCTGTGGGATCACAAACCCAACCCTGTCCATGGCGGGACAGAAGATAAGCCTGTTGATCCTGGAGAGCATGGATTTCTGTGTGAGCCAGGTTCTAGGCGAGAGACTGCCCCTGAAGATGCTCGTCTCAGGGAGGAGCTGGGTGTCCTCAAGTTCATATGCAAAAATCTGTGGGTGGCTGTGTTCCAATAGATGGACAGCTTGTGCACCAATCACCAAGGGACCTACTTTTTGCAGGACAACAGCTTCCACTCCTCATCCCGATG
>NM_001270891.2
AGGCGTGCGAGGAGGGGGCATGGCGGATACTGTGTTGTTTGAGTTTCTTCACACGGAGATGGTGGCTGAGCTGTGGGCTCACGACCCCGACCCCGGCCCGGGGGGACAGAAGATGAGCCTGTCGGTCCTGGAGGGTATGGGGTTCCGTGTGGGCCAGGCTCTAGGCGAGAGGCTGCCCCGGGAGACGCTGGCCTTCAGGGAGGAGCTGGATGTCCTCAAGTTCTTGTGCAAAGACCTGTGGGTGGCGGTGTTCCAGAAGCAGATGGACAGCCTGCGCACCAATCACCAGGGGACCTACGTCCTGCAAGACAACAGCTTCCCCCTCCTCCTCCCGATGGCCTCTGGCCTGCAGTATCTGGAGGAAGCACCCAAGTTCCTGGCCTTCACCTGCGGCCTCCTGCGCGGCGCCCTCTATACCCTGGGCATTGAGAGCGTGGTCACCGCCTCCGTGGCAGCCCTGCCCGTCTGTAAGTTCCAGGTGGTGATTCCGAAATCCTAAGCCTGCCTCGCACCTGCTGAGCCGCACTGCTGCCCCTGGCCTCACCGGCCTCAGGAGACGGTGGGGCCGCTGCATTTCGGGGTGGTCTTGGGAATCCCAGGCCCTAGGGGTCACATTTGCTCAGGAAGTGGGTATCAAATTGAGGTGGGGGTGTCAGAGGAGGCAAAGGGGTCCCAGCTGCGGTCAGGACTGTGGTGGGATTCCCGCCTCGGCAGCGTCACTGCCCAGTAGCTGCTCAATAAAGGCTGTGTGTGTGGAA

Publications

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