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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name LOC100401718P2
Plot displaying the genomic locations of a retrocopy (in chr5) and its respective parental gene (in chr8). Each line represents a retrocopy.
Species Callithrix jacchus
Coordinates chr5:131846465-131846825  UCSC
Strand -
Parental Sequence XM_002760868.5
Parental seq. overlap 299 bp
Parental seq. overlap (%) 21.9%
Genomic Region Intragenic (SEC14L1)
Retrocopy Summary LOC100401718P2, located on chr5:131846465-131846825, is a retrocopy of the parental gene LOC100401718. 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 LOC100401718
Full Name N/A
Also known as CYCS
Coordinate chr8:31043525-31046645
Strand +
Gene summary N/A

Homology

Species Scientific Name Retrocopy
Human Homo sapiens CYCSP40
Chimpanzee Pan troglodytes CYCSP32
Bonobo Pan paniscus LOC100986481P25
Orangutan Pongo abelii CYCSP33
Gibbon Nomascus leucogenys LOC100580069P18
Rhesus Macaca mulatta CYCSP29
Baboon Papio anubis LOC100997529P25
Golden snub-nosed monkey Rhinopithecus roxellana LOC104672188P25
Gorilla Gorilla gorilla Without Homology
Green monkey Chlorocebus sabaeus Without Homology
Crab-eating macaque Macaca fascicularis 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

>LOC100401718P2
AGAATTAAACATGGGTGATGTTGAGAAAGGCAAGACTTTTGTTCCGAAGGGTGCCCAGTGCCACACCATGGAAAAGGGAGGCCAGCACAAGACTGGGCCAGATCTCCACAGTCTCTCTGGGTGGAAGACAGGTCAGGCCACTGGACTCTAACACAGATGCCAGTAAGAACAAAGGCATCACCTGCAGTGAGGACACGCTGATGGGCTATTTGGAGAATCCCTGGAACAAAAATGGTCTTCACTGGTGTTAAGAAGGAGGCAGAAAGGGCAGACTTGAAAGTTTATTTCAAAAAAGCtactaataaataataattggtcaTTGCATTGTTTATTACAAAACCGAAatgtcatgact
>XM_002760868.5
AGCCGCAAGCTCGGCTGTACGTCAGGGCGCGGGAGGGCGGAGCGAGTTTGGTTGCACTTACACTGGTACTTAGGCGCGGACCGGCGTGTCCTTGGACTTAGAGAGTGGGACGTCCGGCTTCTGAGTGGTAGTCTTTGTTGCGCTAACCACGAAAAAGAATTCAATATGGGTGATGTTGAGAAAGGCAAGAGGATTTTTATTCAGAAGTGTTCCCAATGTCACACGGTGGAAAAGGGAGGCAAGCACAAGACTGGGCCTAATCTCCATGGTATCTTTGGGCGGAAGACAGGTCAGGCCTCTGGATTCACTTACACTGAAGccaataaaaacaaagGCATCATCTGGGGAGAGGATACACTGATGGAATATTTGGAGAATCCCAAGAAGTATATCCCTGGAACAAAAATGATCTTTGTCGGCAttaagaagaagggagaaagggaagactTAATAGCTTATCTCAAAAAAGCTACTAATGAGTAATAATTGGCCACTGCCTTATTTATTACAAAACAAATGTCTCATGACTTTTTTATGTGTACCGTACTTTAATAGATCTCATACACCAGAATTTACATCATGAATGACTGACAGAATATTTTGTTGGGCAGTCCTGATTTAAGACTAAGACTGGCTTGTGGTTAAATGAATATGTTCAGTTTTTGGATTTTAATAGTAATTCCAATTTAGTAAATTCTGTCACACCCACCCCTTCTAAAGATAATGATTAGACTTCATTAGTAATGTTAAAACTTTTCGCAAAGATGGTGAGTGCCATCTTAAAACTTACTGGAGAttggttttatatttagatttatatgactggttatgtgaatatatttaaatatggggGCAATTCCTTCACAGTCTCAGAACCAAGCAAGATTCACCTGTGTTTTGTGTTCGTTTGCCTCTTAAAGGCAAGGTTGAAGATAAACGGGTAGCAAtggctattttatatttttggcctTAACTATGCCAATCTAATTAGAGTACCCTGTATTTAAAATGGTTCCTTTTACTTACTGAAAGGCATTTTGTGTGGTTTATgtgtaatataaaaaattatttaacacttcacacattttatagatgatctATAAGGTCACATGCTTTTAAAATAGTAGCCAATTAAACTTCACTCTTGGATTCTTTACAATCTAAGTCAAACTAAGTTATAATTTAGGATTGTCTTTAAAAACAGCCATTCAGAAACAAAACTGTATAACTGCTGTGTATTTGTGATTGGGAATGGTGCTTTTGCCAACCTCTAAAGGATTGAAGTAGAAGAGatatacacaaatttaaaaatgatgtgtGATTATAAGacttaagataattaaaaagaaaaccacagatcaTGA

Publications

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