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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name POU5F1P6
Plot displaying the genomic locations of a retrocopy (in chr3) and its respective parental gene (in chr6). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr3:128675387-128676903  UCSC
Coordinates (hg19) chr3:128394230-128395746  UCSC
Strand -
Parental Sequence NM_002701.6_3
Parental seq. overlap 432 bp
Parental seq. overlap (%) 29.3%
Genomic Region Intergenic
Retrocopy Summary POU5F1P6, located on chr3:128675387-128676903, is a retrocopy of the parental gene POU5F1. 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 POU5F1
Full Name POU class 5 homeobox 1
Also known as OCT3|OCT4|OTF-3|OTF3|OTF4|Oct-3|Oct-4|Oct3/4
Coordinate chr6:31164337-31170682
Strand -
Gene summary This gene encodes a transcription factor containing a POU homeodomain that plays a key role in embryonic development and stem cell pluripotency. Aberrant expression of this gene in adult tissues is associated with tumorigenesis. This gene can participate in a translocation with the Ewing's sarcoma gene on chromosome 21, which also leads to tumor formation. Alternative splicing, as well as usage of alternative AUG and non-AUG translation initiation codons, results in multiple isoforms. One of the AUG start codons is polymorphic in human populations. Related pseudogenes have been identified on chromosomes 1, 3, 8, 10, and 12. [provided by RefSeq, Oct 2013]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes POU5F1P2
Bonobo Pan paniscus POU5F1P2
Gorilla Gorilla gorilla POU5F1P2
Orangutan Pongo abelii POU5F1P1
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
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

>POU5F1P6
TCTGGGGGGTTCTATTTGGGAAGGTGTTCAGCCAAATGACCATCAGCTGCTTTGAGGCTCTGCAGCTCAGTTTCAAGAACATGTGTAAGCTGCCTCCCTTGCTGCAGAAGTGGGTGGAGGAAGCAGCCAACAATGAAGAGCTTCAGGAGATATGCAAAGCAGAGACCCTCAGGCAGGCCGAAAGAACAGGAATTGGGCCGGGTGTTGGGCCAGGCTCTGAGATGTGGGGGTTTCTCCCGTGCCCCCCACTGCATGAGTTCCGTGGGCAGATGGTATACTCTGGGTCTCCGGTTGCAGTGGGGCTAGTGCCCCAAGGTGGCTTGAAGACCTCTCAGCCTGAGGGCGAGGCAGGAGCCTGGGTGGAGAGCAACTGTGAGGGGCCTCCCTGGAGCCTTGCACTGCCCCAGCTGGTGCCATGAAGCTAGAGAAGGAGAAGCTGGAGCAAAACCTCAACGAGTCCCAGGACATCAAAGCTCTGTAATTTGCCAAGCTCCTGAAGCAGAAGAGGATCACCCTGGGATATATCCAGGCCCGTGTGGGGCTCACCCTGGGGGCTCTTTTTTTAAAtgt
>NM_002701.6_3
GAGTAGTCCCTTCGCAAGCCCTCATTTCACCAGGCCCCCGGCTTGGGGCGCCTTCCTTCCCCATGGCGGGACACCTGGCTTCAGATTTTGCCTTCTCGCCCCCTCCAGGTGGTGGAGGTGATGGGCCAGGGGGGCCGGAGCCGGGCTGGGTTGATCCTCGGACCTGGCTAAGCTTCCAAGGCCCTCCTGGAGGGCCAGGAATCGGGCCGGGGGTTGGGCCAGGCTCTGAGGTGTGGGGGATTCCCCCATGCCCCCCGCCGTATGAGTTCTGTGGGGGGATGGCGTACTGTGGGCCCCAGGTTGGAGTGGGGCTAGTGCCCCAAGGCGGCTTGGAGACCTCTCAGCCTGAGGGCGAAGCAGGAGTCGGGGTGGAGAGCAACTCCGATGGGGCCTCCCCGGAGCCCTGCACCGTCACCCCTGGTGCCGTGAAGCTGGAGAAGGAGAAGCTGGAGCAAAACCCGGAGGAGTCCCAGGACATCAAAGCTCTGCAGAAAGAACTCGAGCAATTTGCCAAGCTCCTGAAGCAGAAGAGGATCACCCTGGGATATACACAGGCCGATGTGGGGCTCACCCTGGGGGTTCTATTTGGGAAGGTATTCAGCCAAACGACCATCTGCCGCTTTGAGGCTCTGCAGCTTAGCTTCAAGAACATGTGTAAGCTGCGGCCCTTGCTGCAGAAGTGGGTGGAGGAAGCTGACAACAATGAAAATCTTCAGGAGATATGCAAAGCAGAAACCCTCGTGCAGGCCCGAAAGAGAAAGCGAACCAGTATCGAGAACCGAGTGAGAGGCAACCTGGAGAATTTGTTCCTGCAGTGCCCGAAACCCACACTGCAGCAGATCAGCCACATCGCCCAGCAGCTTGGGCTCGAGAAGGATGTGGTCCGAGTGTGGTTCTGTAACCGGCGCCAGAAGGGCAAGCGATCAAGCAGCGACTATGCACAACGAGAGGATTTTGAGGCTGCTGGGTCTCCTTTCTCAGGGGGACCAGTGTCCTTTCCTCTGGCCCCAGGGCCCCATTTTGGTACCCCAGGCTATGGGAGCCCTCACTTCACTGCACTGTACTCCTCGGTCCCTTTCCCTGAGGGGGAAGCCTTTCCCCCTGTCTCTGTCACCACTCTGGGCTCTCCCATGCATTCAAACTGAGGTGCCTGCCCTTCTAGGAATGGGGGACAGGGGGAGGGGAGGAGCTAGGGAAAGAAAACCTGGAGTTTGTGCCAGGGTTTTTGGGATTAAGTTCTTCATTCACTAAGGAAGGAATTGGGAACACAAAGGGTGGGGGCAGGGGAGTTTGGGGCAACTGGTTGGAGGGAAGGTGAAGTTCAATGATGCTCTTGATTTTAATCCCACATCATGTATCACTTTTTTCTTAAATAAAGAAGCTTGGGACACAGTAGATAGACACACTTA

Publications

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