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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name RPL6P45
Plot displaying the genomic locations of a retrocopy (in chr8) and its respective parental gene (in chr12). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr8:94201900-94202816  UCSC
Coordinates (T2T) chr8:95326755-95327669  UCSC
Coordinates (hg19) chr8:95214128-95215044  UCSC
Strand -
Parental Sequence NM_001320139.2
Parental seq. overlap 454 bp
Parental seq. overlap (%) 43.3%
Genomic Region Intragenic (CDH17)
Retrocopy Summary RPL6P45, located on chr8:94201900-94202816, is a retrocopy of the parental gene RPL6. 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 RPL6
Full Name ribosomal protein L6
Also known as L6|SHUJUN-2|TAXREB107|TXREB1
Coordinate chr12:112405181-112418850
Strand -
Gene summary This gene encodes a protein component of the 60S ribosomal subunit. This protein can bind specifically to domain C of the tax-responsive enhancer element of human T-cell leukemia virus type 1, and may participate in tax-mediated transactivation of transcription. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed throughout the genome. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Feb 2016]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes RPL6P24
Bonobo Pan paniscus RPL6P26
Gorilla Gorilla gorilla RPL6P25
Orangutan Pongo abelii RPL6P24
Gibbon Nomascus leucogenys RPL6P31
Green monkey Chlorocebus sabaeus LOC103246174P11
Crab-eating macaque Macaca fascicularis RPL6P24
Rhesus Macaca mulatta RPL6P24
Baboon Papio anubis RPL6P24
Golden snub-nosed monkey Rhinopithecus roxellana RPL6P28
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

>RPL6P45
TCGATACCAGCAGTGTGAGAAACCCAAAACATCTTACCAATGCCTACTTTAAGAAGCAGTTGTGGAAGCCTAGTCAGTAGGAGGGTGAGATCTTTGACAGAAAAAGAGAAATGTAAGACTACAAAGCAGTGCAAGGCTGATCAGAAAACCATGGACTGGCAAATTTTACCAAAACTCAAAGCTATTCCTCAGCTCCAGGGCTACCTGCAATCTGTGTGTGCCCTGGTGAATGGAATTTATCCTCACAAATTGGTGTTCTAAATTTCTTAAGAAGTCTCGCAACCGTTACAAACCCAGTTGAGGTGACAAGAATGGTGATGCCTGGCTATTTAAACTTCACAAAATGCCTTGATATTATCCAACAGAGATGTGCCTCAAAAGCTGTCCAGCCATCGCAAGAAACTCTGCAGTCAGCATGTGAGAAAACTTGGAGCCAGCACGGCCCTCGAGACCATTCTGCTCATCCTCCCTTGGTGCCACCAAGGCAGGAGGGTGGTTTTCCTGGAGCAGCTGGGCAGTAGCTTGTTACTTGTGGCTGGACCTCTGGTCTTCCATGGAGTTCCTCTGTGAAGGACACACCAGAAATTTGTCATCACCACCTCCATAAAAATTGATATCAGg
>NM_001320139.2
GCACTGTGTTCCTGGTCCTGGGTTCCAGAGGATGACACTGAGCCTGTCGCAGCCACGTTGGGGTTCCGCACTGAAGCCAAAAGATGGCGGGTGAAAAAGTTGAGAAGCCAGATACTAAAGAGAAGAAACCCGAAGCCAAGAAGGTTGATGCTGGTGGCAAGGTGAAAAAGGGTAACCTCAAAGCTAAAAAGCCCAAGAAGGGGAAGCCCCATTGCAGCCGCAACCCTGTCCTTGTCAGAGGAATTGGCAGGTATTCCCGATCTGCCATGTATTCCAGAAAGGCCATGTACAAGAGGAAGTACTCAGCCGCTAAATCCAAGGTTGAAAAGAAAAAGAAGGAGAAGGTTCTCGCAACTGTTACAAAACCAGTTGGTGGTGACAAGAACGGCGGTACCCGGGTGGTTAAACTTCGCAAAATGCCTAGATATTATCCTACTGAAGATGTGCCTCGAAAGCTGTTGAGCCACGGCAAAAAACCCTTCAGTCAGCACGTGAGAAAACTGCGAGCCAGCATTACCCCCGGGACCATTCTGATCATCCTCACTGGACGCCACAGGGGCAAGAGGGTGGTTTTCCTGAAGCAGCTGGCTAGTGGCTTATTACTTGTGACTGGACCTCTGGTCCTCAATCGAGTTCCTCTACGAAGAACACACCAGAAATTTGTCATTGCCACTTCAACCAAAATCGATATCAGCAATGTAAAAATCCCAAAACATCTTACTGATGCTTACTTCAAGAAGAAGAAGCTGCGGAAGCCCAGACACCAGGAAGGTGAGATCTTCGACACAGAAAAAGAGAAATATGAGATTACGGAGCAGCGCAAGATTGATCAGAAAGCTGTGGACTCACAAATTTTACCAAAAATCAAAGCTATTCCTCAGCTCCAGGGCTACCTGCGATCTGTGTTTGCTCTGACGAATGGAATTTATCCTCACAAATTGGTGTTCTAAATGTCTTAAGAACCTAATTAAATAGCTGACTACAT

Publications

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