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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name EEF1E1P1
Plot displaying the genomic locations of a retrocopy (in chr2) and its respective parental gene (in chr6). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr2:111887893-111889478  UCSC
Coordinates (T2T) chr2:112314295-112315881  UCSC
Coordinates (hg19) chr2:112645470-112647055  UCSC
Strand +
Parental Sequence NM_004280.5
Parental seq. overlap 864 bp
Parental seq. overlap (%) 79.6%
Genomic Region Intergenic
Retrocopy Summary EEF1E1P1, located on chr2:111887893-111889478, is a retrocopy of the parental gene EEF1E1. 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 EEF1E1
Full Name eukaryotic translation elongation factor 1 epsilon 1
Also known as AIMP3|P18
Coordinate chr6:8073360-8102548
Strand -
Gene summary This gene encodes a multifunctional protein that localizes to both the cytoplasm and nucleus. In the cytoplasm, the encoded protein is an auxiliary component of the macromolecular aminoacyl-tRNA synthase complex. However, its mouse homolog has been shown to translocate to the nucleus in response to DNA damage, and it plays a positive role in ATM/ATR-mediated p53 activation. Alternative splicing results in multiple transcript variants. Read-through transcription also exists between this gene and the neighboring downstream MUTED (muted homolog) gene. An EEF1E1-related pseudogene has been identified on chromosome 2. [provided by RefSeq, Dec 2010]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes EEF1E1P1
Bonobo Pan paniscus EEF1E1P1
Gorilla Gorilla gorilla EEF1E1P1
Orangutan Pongo abelii EEF1E1P1
Gibbon Nomascus leucogenys EEF1E1P1
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
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

>EEF1E1P1
TCCAGGAGCTACCGCCAGAAGATGGCAGCAGCCGCCAAGTTGTCACTACTAGAGAAGTCCCTGGGACTGAGTAAGGGGAATAATAAATAAAGTGCTCAGGATGAGTGACAGATTCTGGTTCTTCAAACAAACAATGGTCCAAGTCTAACAGGATTGACTACTATAGCAGCTCATCTAGTCAAGCAAGCTAACAAAGGATATTTGCTAGGGAGTACTGCAGAAGAAAAAGCAATAGTTCAGCAATGGTTACAATACAGAGTCACTCCAGTAAAAATGATAGCCACACACTGGCACACCCTGTTGAAGGATCTTATTTCATATCTTGAAGATAAAGTCTACCTTACAGGATATAACTACCTTTGCAGATATCCTATTGTACTATGGACTTCATCGCTTTATAGTTGACCTGACAGTTCAAGAAAAGAAGAAATATCTTAATGCGTCTCGCTGGTTTTGTCACATTCAGCATTATCCAGATATCAGGCAACATCTGTCTAGTGTTGTCTTCATCAAGAACAGACTATACACTAATTCCCACTAGAAGCTATCCGTGCCGTACAGAAGATGTATTAAAAATGTTTTAACTGGAAAATGTATTCTGACCACAGGACTAATATAAATTAATATACAGTCATTCATTATTTGTTGAAATCTATAGAATTTTTAAAGTGTCAACTTGTGTCTGAATGTTTTATTTGTTCTTTAGTTGAAGCcTTTAGTTGAAGTTTTGCAATGTTTTATGTAAAAATTTAACTGCTATTAAAAAAACAAGTTGAGATCAAGTTACAAAATTAACCTTGTTTTTAACAAATGACATTTATTTCAATAAAAGTTGCAAATCAGTGGTTTAATCTAAAATAAAAATAGGTGTCCTTTCAATGGTTGACATATTTGGCTATTTATTAACCTCTTTCATATTCTCAAATTTCTTTTCCCCTTTTGGGTATTTATGGAAGTTTGTTAAGAACTG
>NM_004280.5
GCGTCTGCCAGGAGCTACGGCCGGAAGATGGCGGCGGCCGCAGAGTTGTCGCTACTGGAGAAGTCCCTGGGACTGAGTAAGGGGAATAAATACAGTGCTCAGGGCGAGCGACAGATTCCAGTTCTTCAGACAAACAATGGTCCAAGTCTAACAGGATTGACTACTATAGCAGCTCATCTAGTCAAGCAAGCCAACAAAGAATATTTGCTGGGGAGTACTGCAGAAGAAAAAGCAATCGTTCAGCAGTGGTTAGAATACAGGGTCACTCAAGTAGATGGGCACTCCAGTAAAAATGACATCCACACACTGTTGAAGGATCTTAATTCATATCTTGAAGATAAAGTCTACCTTACAGGGTATAACTTTACATTAGCAGATATACTATTGTACTATGGACTTCATCGCTTTATAGTTGACCTGACAGTTCAAGAAAAGGAGAAATATCTTAATGTGTCTCGCTGGTTTTGTCACATTCAGCATTATCCAGGCATCAGGCAACATCTGTCTAGTGTTGTCTTCATCAAGAACAGACTATATACTAATTCCCACTAGAAGCTGTCCATGCCATACAGAAGATCTATTAAAAATGTTTTAAATGGAAAATGTACTCTAGACCACAGGACTAATGTAAATTAATATACAGTCATTCATTATTTGTTGAAGTTGATAGAATTTTTGAAGTGTAAACTTGTGTCTGAATGTTTTATTTGTTCTTTAGCTGAAGTTTTGCAATTTTTATGTCAAAATTCAATTGCTATTAAACAAGTTGAGATCCAGTTATAAATTAACCTTGTTTTTAGTAGATGACATTTATTTCAATAAAAGTTGCAAATCGGGCTTAATCTTAAAATTGGTGGTCATTTCAATGGTTGACATATTTGGCTATTTATTAACCTCTCTTTCATATTCTAAAATTCATTTTCCCCTTATGGATATTTATGGTAGTTTGTTAAGAACTGATAAATTGTGCCAAGGAAGCCAAAAGGGAAGACAGATGGATTTGTTTTAAAATATTTATGTGAGCTAGTAAATGTGGTTGAAAAAATA

Publications

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