Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name PAAF1P1
Plot displaying the genomic locations of a retrocopy (in chr12) and its respective parental gene (in chr11). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr12:20845046-20845612  UCSC
Coordinates (T2T) chr12:20723682-20724245  UCSC
Coordinates (hg19) chr12:20997980-20998546  UCSC
Strand +
Parental Sequence NM_001267806.2
Parental seq. overlap 528 bp
Parental seq. overlap (%) 10.7%
Genomic Region Intragenic (SLCO1B3-SLCO1B7)
Intragenic (SLCO1B3)
Retrocopy Summary PAAF1P1, located on chr12:20845046-20845612, is a retrocopy of the parental gene PAAF1. 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 PAAF1
Full Name proteasomal ATPase associated factor 1
Also known as PAAF|Rpn14|WDR71
Coordinate chr11:73876699-73931114
Strand +
Gene summary This gene encodes a WD repeat-containing protein involved in regulation of association of proteasome components. During HIV infection, the encoded protein is thought to promote provirus transcription through recruitment of the 19S regulatory complex. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Jun 2012]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes PAAF1P1
Bonobo Pan paniscus PAAF1P1
Gorilla Gorilla gorilla PAAF1P1
Orangutan Pongo abelii PAAF1P1
Gibbon Nomascus leucogenys PAAF1P1
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

>PAAF1P1
aGCACCAGTTCTATCCCTCTAAGTTTCAGAGATGGATTCATTGCTAACCAAGGTGATGGAAGCCATTTTATTATCCAGCAAGACTTAGACTATGTCATTGAGCTCACCGGGCTGATTGTGACCCTATGTACAAGGTAGCCACATGGGAGAAGCAGATCTACACATACTGTTAAGATGGTCTTGTATGATTCTACCAGCTTTCTGACCTCTGACCTCTTGGAAAGAGCAGCCCCAGTTAGTGAAAAGGTTTGACCCTGATCAACAATGAGTAGAAACATCATCAGTCCTTAATGTCTTGGGCGCCCCTTGGAAATCACAGAAAGTCAGCTGTCCTGGCTATATGGGACTCTCATCCCAAGACCTACTTTGAACTGAGTAAGAAGCTCACCTGTGACTACCGCATTTGTCTCAACTTCTCCTTGTGTAAACTCACCCCAGCAACACAGGGCAAGGATATAGATGCTTCAGTTTGTTCTTTTGTGTTAAATGTTTACAAGGACCTCAGAACTAAAGCCTGTTCTCTGGAGGAAATAAAGAAAATATGTTTGGAGGTGCCTGAATATGAA
>NM_001267806.2
GATCGCAGCCCCGTTGTGCCCGCAACGCCTCCTGAAGAACGCGGAAGGATGAAGGGGAGGCCTGGCTGAGCTGTCATCCCCCAGGGAAACCATCTTTGTATGGCAGCCTGACTTGTCAAGGAATTGGCCTAGATGGCATCCCAGAGGTTACAGCTTCAGAAGGATTTACTGTGAATGAAATAAACAAGAAAAGCATTCATATTTCATGTCCAAAGGAAAATGCATCTTCTAAGTTTTTGGCACCATATACTACTTTTTCCAGAATTCATACAAAGAGTATAACATGCCTGGACATTTCCAGCAGAGGAGGTCTTGGTGTGTCTTCTAGTACTGACGGGACCATGAAAATCTGGCAGGCTTCCAATGGAGAACTCAGGAGAGTATTGGAAGGACATGTGTTTGATGTGAATTGTTGCAGGTTTTTCCCATCAGGCCTTGTGGTCCTGAGTGGGGGAATGGATGCCCAGCTGAAGATATGGTCAGCTGAAGATGCTAGCTGCGTGGTGACCTTCAAAGGTCACAAAGGAGGTATCCTGGATACAGCCATCGTTGATCGGGGGAGGAATGTGGTGTCTGCTTCTCGAGATGGGACAGCACGACTTTGGGATTGTGGGCGCTCAGCCTGCTTGGGAGTCCTTGCAGATTGTGGTTCTTCTATCAATGGAGTGGCGGTGGGTGCTGCTGACAACTCCATAAACCTTGGCTCCCCTGAGCAGATGCCCAGTGAACGGGAGGTTGGAACAGAGGCCAAAATGCTGCTCTTGGCCCGGGAAGATAAGAAACTTCAGTGCTTGGGACTACAGAGCAGGCAGCTGGTGTTCCTCTTTATTGGCTCAGACGCTTTCAACTGCTGTACTTTTCTCTCTGGCTTCTTGCTATTGGCTGGGACTCAAGATGGAAACATTTATCAGCTGGATGTGAGGAGTCCAAGGGCTCCGGTACAAGTCATCCACAGATCAGGAGCACCAGTTCTATCCCTGCTAAGTGTCAGAGATGGATTCATTGCTAGCCAAGGTGATGGAAGCTGTTTTATTGTCCAGCAAGACTTAGACTATGTCACTGAGCTCACTGGGGCTGACTGTGACCCTGTGTACAAGGTAGCCACATGGGAGAAGCAGATCTACACATGCTGTCGAGACGGTCTTGTACGACGCTACCAGCTTTCTGACCTCTGACTTCTTGGAAAGAGCAGTCCCGGTTAGTGAAAAGGTTTGACCCTGATCAACAATGAGCAGAAACATCATCAGTCCTTCCCAAGGACCATGGCGTTTAATGTCTTGGGCACCCCTTGGAAATCACAGAAAGTCAGCTGTACTGGCCGTGTGGAACTCTCATCCCAAGACCTACTTTGAACTGAGTAAGAAGGTCATTGTGCCCACTGCATTTGTTCCAACTTCTCCTTGTATAAACTCACCCCAGCAACACAGGGCAAGGATATAGATGCTTTTAGTTTGTTCTTAAACCAGTTTTGTTAAATGTTTACAAGGACCTCAGTACTAAAGCCTGTTCTCTGGAGGAAATAAAGAAAATATGTTTGGAGGTGCCTGAATATGAAGAACTTTGTTAAATACTCTTACTCCAGCAAAAAGTTGGTCAGGACGATGGAATTCCTTCCTCAGCACTCCCTGTTGCCTGGCCATAGAGAAGGCCTGCTTGGCAGTAGCAATAAATGTCCTGTAAGCTGCCACCTGGGAGAGATTCTTATGCAGGTggtaaccaactgtcccagtttgcttggaactaaggggttttctgtgacttgaaactttcaatgccaaaactggggcagtctcaaaccaacatgattggtcagcctaTATGTAGGTGAGGAAACTGAATCATAAGCATTGTAAAGGcattggctgtcaaagtgtggttcttagaacagcagcatcagtatcacctgggaacttgacaggaaatagaaattgttaggcccaatcctagacctaaatcagaaattctacgggtgcagccagcagtctgtattttaacaagcattccaggtgattctgatgtatgctaaagcttgagagccactgATCTAGAGGAAGAGATGGTGGAGGGCACTTTAGTCACAGCTGGAACCCAGGGCTCAAAATGACAAGATCGGTCTgtaggagatgaggccacagaggttggcagagcccaaatagtgaaggagcacgaatgttagctaaggagctcagactttacgtggttggcagtggggaaccactgaagggttttaagcaagagaatggcatggtcACCTCCTTTTTTCTCTAAacataaaaatggaatcataatgtatgtattccatggcttattttcacttaatgtctctgagattttccatctcagtacatgtagacgttcctcattcttttttaacaatgtccagaatatggataccatattatttaTATTTTTGAGATTATTAGAgaaaagtttcttgaaagatgtaacacttgagctgggacatgcagattaagATTTTTATTTATTTAACGGAGGAAGGTCATTTCTGGCTGGGGTAATAATGTTGTTGACAGAGttcttttttttgttttttttgagacggagtctcgctctgtcacccagactggtgcgatcttggctcactgcaacctccacctctcaggttcaaacgattctcctgcctcagcctccctagtagctgggactgcaggcatgcaccaccatgcccggctaatattttttttgtatttttattagagatggggtttcaccatgttggccaggctggtctcgaactcctgaccttgtgatccacctgccttggcctcccaaagtgctgggattacaggtgtgagccaccgtacccggccGGCCACCAGAGTTTTTAAAGGCGTATTCTCATGTAAAttttttttttttaaagacagggtcttgctctgttgcccaggctggaatgcgttggcatgattacagcttctgccttaacctcctgggctcaagcaatcctcccacttcagcctcccaagtagctgaaaccatgggtgcacaccaccacactcggctaattttttaaattttttgtagagacagagtctcaccatgttgcccaggctggtctcaaactcctgaactcaagtattcctcccaccttggcctctcatagtgctggcattacaggcatgagccacggcactcaaccAGGAACTTTGTCTTAACTTTAAATCCCATTTTTTTCTACAACACCCTGTTACTTAAACCAAAGTGTAAAAAGAAAATACTGCAATTCATTTAATATCTACTCTGTTCTAGATACTATATTTATATATCTAATTCTTACAAGACTCAAAAAGCGAATGTTATTATTTGTTTTATTCCGATAAGGAAACTGAGACTCAATACATTAAATACCAGAGGCTTCATTTGGACCTTGGACAGCACCTTCTGCTGCACTGTGTAATCACAGGCAGGTAGCAAGAGACTTTTGTGACTAGAGCAATTTCATTTCAAGGTGCAGTTTGTGACAGGGTCAGGTAGACCAGAATGGACATATTCCAGAACTTAGAAACATTAAATCCTAGGAGCTCCAGGTGGAACATCTAAGAAGTCAGATTAAGAAAACAGGATGAggctgggcatggtggctcacgcctataatcccagcactttgggaggccaagacgggtggatcacctgaggtcaggagttcgagaccagcctgaccaacatggagaaaccccgtctctactaaaaatacagaattagccgggcatgatggcgcatgtctgtaatcccagctacttgggaggctgaggcaggagaatcacttgatcccgggaggcagaggttgtggtgggctgagattgcgccattgcgctccagcctgggcaacaagagtgaaactccgtctcaaaaaaaaaaaaaaagaaaaCAGGATGAAATGggccgggcgcagtggctcacgcctgtaatcccagcactttgggaggccgaggcgggcggatcacaaggtaaggagattgagaccatcctggctaacacagtgaaaccctgtctacaaaaaatacaaaaaaatttagccaggcatggtggcaggcacctatagtcccagctacttgggaggctgaggcaggagaatggtgtgaacctggcaggcagagcttgcagtaagctgagatcgggccacagcactccagcctgggcgacagagcgaggctctatctcaagaaaaaaaaaaagaaaaaaagaaaaCAGGAAGAAatgttgtcatttatttgtagaatctgaaacatttgaactcatagaagcagtgagtggaaGAACCAgcgtggtggctcacgcctgtaatcccagcactttgggaggctggggtgggtggatcgctggagcccaggaattggagaccagcctgcacaacatgaggaaactctgtctctactaaaaatacaaaacttagccaggtgtggtggtgggcacctgtaataccagctactaaggagactgaggcaggagaattgcttgaacccaggaggtggagggtgtagtgagctgagattgcaccactgcactccagcttgggcaacagagcgagactctctctcaaaaaagaaaaaaaaaatatgtatatatatatgtatatatatatatttatatatgtagaagcagtgagtagaatggtggttacagagactcggggaggaggaatggggaaatgatggtcatagggtgcaaagtctcaggaggaatatattgtgttttgagatctattgcatagcatggtagattgctaagagtaaatttcaaatgttctcaacccaaaaaatgttaagcatttgaggtgatggatatgttaactggcttcatttaattattccatattgtatttataagtcacaataggactttgtggcccataattataaacaagtataaattgtccatttacaattaaaaatcaaTTAAAAGAAAA

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