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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name RPL17P25
Plot displaying the genomic locations of a retrocopy (in chr6) and its respective parental gene (in chr18). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr6:80373979-80374590  UCSC
Coordinates (T2T) chr6:81582366-81582977  UCSC
Coordinates (hg19) chr6:81083696-81084307  UCSC
Strand -
Parental Sequence NM_001199344.3
Parental seq. overlap 571 bp
Parental seq. overlap (%) 71.6%
Genomic Region Intergenic
Retrocopy Summary RPL17P25, located on chr6:80373979-80374590, is a retrocopy of the parental gene RPL17-C18orf32. 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 RPL17-C18orf32
Full Name RPL17-C18orf32 readthrough
Also known as PD-1|RPL17
Coordinate chr18:49481178-49492465
Strand -
Gene summary This locus represents naturally occurring read-through transcription between the neighboring RPL17 (ribosomal protein L17) and C18orf32 (chromosome 18 open reading frame 32) genes. Alternative splicing results in multiple transcript variants. The encoded isoforms share sequence identity with the RPL17 protein, but they include frameshifted C-terminal regions derived from the downstream gene exons. [provided by RefSeq, Dec 2010]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes RPL17P21
Bonobo Pan paniscus RPL17P23
Gorilla Gorilla gorilla RPL17P22
Orangutan Pongo abelii LOC103892985P19
Gibbon Nomascus leucogenys RPL17P42
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

>RPL17P25
AGCCGGAGGTAATCTGTGAAAATGGTGCCCTATACACTTGACCGGGAGAACCCCACAAAATCATGCAAATCAAGAGGTTCCAATCTTTGTATTCACCTTAAGAACACTCGTGAAACTGCCCAGGCCATCAAGGGTATGCATATATGAAAAGCCACAAAATATCTGAAAGATGTCACTTTACAGAAACGGTGCGTACCATTCCGACGTTACAATGGTGGAGTTGGCAGGTGTGCCCAGGCCAAGCAGTGGGGCTAGACACAAGGTTGGTGGCCCAAAAAGAGTGCTGAATTTTTGCTGCACATGCTTAAAAATGCAGACAGTAATGGTGAACTTAAGGGTTTAGATGTAGACTCTCTGGCCATTGAGCATATCCAAATGAATAAAGCATCTAAGATGTGCTGCCAGACCTACAGAGCTCATAGTCGGATTAACCCATACATGAGCTCTCCCTGCCACATTGAGATGAGCCTTACTGAAAAGGAACAGATTGCTCCTAAACCAGAAGAAGAAGTTGCCCAGAAGAAAAAGATATCCCAGAAGAAACTGATGAAACAAAAACTTATGGCATGGGAGTAAATTCAGCATTAAAATAAATGCAATTAAAAGGAAAAA
>NM_001199344.3
AGCCTGAGGTGAGTGTTTCTCCTGCGTTGCTCCGAGGGCCCAATCCTCCTGCCATCGCCGCCATCCTGGCTTCGGGGGCGCCGGCCTCCAGGCCCCCGGGAGGAGAACTCCTAGGGCTACTAAATCCTCGCTGGAGGCGGTGGCTTCTTATGCGGGAGGACGTGGCGGAGGGCCTGACTTTGGGAGCCGGGGTGATCTGTGAAAATGGTTCGCTATTCACTTGACCCGGAGAACCCCACGAAATCATGCAAATCAAGAGGTTCCAATCTTCGTGTTCACTTTAAGAACACTCGTGAAACTGCTCAGGCCATCAAGGGTATGCATATACGAAAAGCCACGAAGTATCTGAAAGATGTCACTTTACAGAAACAGTGTGTACCATTCCGACGTTACAATGGTGGAGTTGGCAGGTGTGCGCAGGCCAAGCAATGGGGCTGGACACAAGGTCGGTGGCCCAAAAAGAGTGCTGAATTTTTGCTGCACATGCTTAAAAACGCAGAGAGTAATGCTGAACTTAAGGGTTTAGATGTAGATTCTCTGGTCATTGAGCATATCCAAGTGAACAAAGCACCTAAGATGCGCCGCCGGACCTACAGAGCTCATGGTCGGATTAACCCATACATGAGCTCTCCCTGCCACATTGAGATGATCCTTACGGAAAAGGAACAGATTGTTCCTAAACCAGAAGAGGAGGTTGCCCAGAAGAAAAAGATATCCCAGAAGAAACTGAAGAAACAAAAACTTATGGCACGGGAGTAAATTCAGCATTAAAATAAATGTAATTAAAAGGAAAAGAA

Publications

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