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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name LOC100433071P9
Plot displaying the genomic locations of a retrocopy (in chr5) and its respective parental gene (in chr1). Each line represents a retrocopy.
Species Pongo abelii
Coordinates chr5:112766194-112766757  UCSC
Strand +
Parental Sequence XM_002809387.3
Parental seq. overlap 512 bp
Parental seq. overlap (%) 47.1%
Genomic Region Intergenic
Retrocopy Summary LOC100433071P9, located on chr5:112766194-112766757, is a retrocopy of the parental gene LOC100433071. 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 LOC100433071
Full Name N/A
Also known as H3F3A
Coordinate chr1:23502798-23512098
Strand -
Gene summary N/A

Homology

Species Scientific Name Retrocopy
Human Homo sapiens H3P24
Chimpanzee Pan troglodytes HIST1H3AP16
Bonobo Pan paniscus LOC100970414P9
Gorilla Gorilla gorilla LOC101132116P12
Gibbon Nomascus leucogenys LOC100599068P3
Green monkey Chlorocebus sabaeus LOC103232061P25
Crab-eating macaque Macaca fascicularis H3F3AP20
Rhesus Macaca mulatta LOC699443P13
Baboon Papio anubis LOC101010649P12
Golden snub-nosed monkey Rhinopithecus roxellana LOC104677083P3
Marmoset Callithrix jacchus LOC100406796P7
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

>LOC100433071P9
TGCTCTCCAACACCAGCACCACCTGTCGCTCGCTGAGCTCCAGCCTAAGGAGAAGGGGGGTAAGTAAGGAGTTCTCCATACCATGGCTGTTACAAAGCAGACTTCCTGCAAATCCACTGGTAGTGAAGCACCCAGAAAGCAAGTGGCTACAAAAGCCACCTGCAAGAGTGCACCCTCTACTGGAAGGGTGAAGAAGCCTCATTGTTACAGGCCGGTTCTGTGGCGCTCCGAGAAATGACACATTATCAGAAGTCCACTGAACTTCCAATTCGCAAACTTCCCTTCCAGCATCTGGTGGAGAAATTGCTCAGGACTTTAAAACAGATTTGGGCTCCAGAGCGCAGCTATTGGTGCTTTGCAGGAGGCAAGTGAGGCCTATCTGGTTGGCCTTTTTGAAGACACCAACCTGTGCACTATCCATGCCAAACGTGTAACAATTATGCCAAAAGACATCCAGCTAGCACATTGCATATGTGGAGAATGTGCCCAAGAATCTGCTATGATGGGAAACATTTCATTCTCAAAAAAAAAAAAAATTATCTTCTTGCTGTTATTGGTAGTTCT
>XM_002809387.3
GGCGTGTGTTGGGGGATAGCCTCGGTGTCAGCCATCTTTCAATTGTGTTcgcagccgccgccgcgccgccgtcgctctccaacgccagcgccgcctctcgctcgccgAGCTCCAGCCGAAGGAGAAGGGGGGTAAGTAAGGAGGTCTCTGTACCATGGCTCGTACAAAGCAGACTGCCCGCAAATCGACCGGTGGTAAAGCACCCAGGAAGCAACTGGCTACAAAAGCCGCTCGCAAGAGTGCGCCCTCTACTGGAGGGGTGAAGAAACCTCATCGTTACAGGCCTGGTACTGTGGCACTCCGTGAAATTAGACGTTATCAGAAGTCCACTGAACTTCTGATTCGCAAACTTCCCTTCCAGCGTCTGGTGCGAGAAATTGCTCAGGACTTTAAAACAGATCTGCGCTTCCAGAGCGCAGCTATCGGTGCTTTGCAGGAGGCAAGTGAGGCCTATCTGGTTGGCCTTTTTGAAGACACCAACCTGTGTGCTATCCATGCCAAACGTGTAACAATTATGCCAAAAGACATCCAGCTAGCACGCCGCATACGTGGAGAACGTGCTTAAGAATCCACTATGATGGGAAACATTTCATTCTCAAAAAAAAAAAAAAAATTTTCTCTTCTTCCTGTTATTGGTAGTTCTGAACGTTAGATATTTTTTTTCCATGGGGTCAAAAGGTACCTAAGTATATGATTGCGAGTGGAAAAATAGGGGACAGAAATCAGGTATTGGCAGTTTTTCCATTTTCATTTGTGTGTGAATTTTTAATATAAATGCGGAGACGTAAAGCATTAATGCAAGTTAAAATGTTTCAGTGAACAAGTTTCAGCGGTTCAACTTTATAATAATTATAAATAAACCTGTTAAATTTTTCTGGACAATGCCAGCATTTGGATTTTTTTAAAACAAGTAAATTTCTTATTGACGGCAACTAAATGGTGTTTGTAGCATTTTTATCATACAGTAGATTCCATCCATTCACTATACTTTTCTAACTGAGTTGTCCTACATGCAAGTACATGTTTTTAATGTTGTCTGTCTTCTGTGCTGTTCCTGTAAGTTTGCTATTAAAATACATTAAACTATA

Publications

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