Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name UPF3AP2
Plot displaying the genomic locations of a retrocopy (in chr17) and its respective parental gene (in chr13). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr17:20374815-20376944  UCSC
Coordinates (T2T) chr17:20323474-20325605  UCSC
Coordinates (hg19) chr17:20278128-20280257  UCSC
Strand -
Parental Sequence NM_001353646.1
Parental seq. overlap 1471 bp
Parental seq. overlap (%) 56.7%
Genomic Region Intergenic
Retrocopy Summary UPF3AP2, located on chr17:20374815-20376944, is a retrocopy of the parental gene UPF3A. 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 UPF3A
Full Name UPF3A regulator of nonsense mediated mRNA decay
Also known as HUPF3A|RENT3A|UPF3
Coordinate chr13:114281601-114305817
Strand +
Gene summary This gene encodes a protein that is part of a post-splicing multiprotein complex involved in both mRNA nuclear export and mRNA surveillance. The encoded protein is one of two functional homologs to yeast Upf3p. mRNA surveillance detects exported mRNAs with truncated open reading frames and initiates nonsense-mediated mRNA decay (NMD). When translation ends upstream from the last exon-exon junction, this triggers NMD to degrade mRNAs containing premature stop codons. This protein binds to the mRNA and remains bound after nuclear export, acting as a nucleocytoplasmic shuttling protein. It forms with Y14 a complex that binds specifically 20 nt upstream of exon-exon junctions. This gene is located on the long arm of chromosome 13. Several splice variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2017]

Homology

Species Scientific Name Retrocopy
Bonobo Pan paniscus UPF3AP2
Gorilla Gorilla gorilla UPF3AP1
Chimpanzee Pan troglodytes Without Homology
Orangutan Pongo abelii Without Homology
Gibbon Nomascus leucogenys Without Homology
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

>UPF3AP2
GATTAAGCTTCTTAAGAAACCAGAAAAGGGAGAGGAACCAACCACAGAGAAACCAAAAGAAAGAGGAGAGGAGATTGATACTGGAGGTGGCAAGCAGGAATCCTGTGCCCCCGGTGCAGTCGTAAAAGCCAGGCCCGTGGAAGGCTCGCTGGAGGAGCCCCAGGAGACGTCACACAGCGGCAGTGATAAAGAGCACAGGGATGTGGAGAGATCTCAAGAACAAGAATCTGAAGCACAAAGACACCATGTGGATGATGGCAGGAGGCACAGAGCTCACCACGAGCCTGACCGGCTTTCCAGAGGGAGTGAGGATGAGCAGAGATGGGGGAAAGGACCTGGCCAAGACAGAGGGAAGAAGGGGAGCCAGGACAGCGGGGCTCCGGGGGAGGCCATGGAGAGACTGGGAAGAGCGCAGAGGTGTGACGACAGTCCAGCACCCAGAAAAGAGCGACTGGCAAACAAGGACCGGCCAGCCTTGCAGCTGTATGATCCAGGAGCTCACTTCCGAGCGCTAGAGTGTGGCGGAAACAGGAGGATCTGCAAGGCAGAAGGTTCGGGAACTGGTCCTGAGAAGAGGGAAGAGGCAGAGTGAGTCACTGCACGCACCTGGCCTCCATGGACGAGCGAGGGCATCCCAGAAACGTGTAAATGACCCCGAGTGTGACTGGGAAGGAGAACTTATTCCTTACCAGGAAACTGGAAGCTAAAACTACAGAGGGTGACATAGAAACACGCAGAAACCATTCTAAAGAAAGTAGTGATCTTGTATTAAATTGAGCAGAATTCTCACAGATTTTACCATTCCTGTTATAAACTAGTATTTGTTGTTTAGCCAAAACAGAAAATGATTTCCACTGGACAGTAGAAAAATATGTGTAAAATAGGGAAGAAAGTTAGTATTGGATCAGTGTGAGTCCTGAAGCACTTTCAGTGCTGTGAGAACGACATCCACTTTGGGTTTCATTCGTTTGTAAGCAGAGGAGCTGTCAGTCACTCGTGCTTCTCGTTGGCCTCTGAGCCATGGTGTCGAGTGAAGAGTAGTTCTTGTTTGTTACAACCTTTGTGAGTCAGCCATGCCTGCAAAGTGTGCTGTGTTTTAGTCCTGGTAGGAATATTTATCAGAGTTCACACTATATAAAACCCAACAGCTTCAACTATTGCCCTTTCAACAGTTTTGCCACTGACCGGATAAAAACGGTTTCAGTCTTTGGATGGATGTGTTTGTGGTTTGTAACCATTACGGTTTAAACCATGGTTTAAGAATTTGCCCAAATAACAGAAATTTTGTTCGGGAAGGGATAAACGAGATATAGCATATAGAGCCTGTTTTTGAGTTTTAGATACTTTATTTGTAAATAACTTAAAATAGCTTTCTGAAACCGTGCATTCTGTAGTTTCTTCCTTTCAGTGAAATTGCTAAATGTGAATGTATTTTTGGCACTGCGATTTTAACCATTTATTAAATAAAAATTTTGTTAAAGAAaCCTCCCAGCGCGGTACGCGGTGCCTTTTGAGCTCCTTGTCCACGCTCCGCCCCTGTGGGAACGGCCGCGCTCCCCGCAGCTGGTCATCCGCCGCCTGCCTCCGGGCCTCACCAAGGAGCAGCTGGAGGAGCAGCTGCGCCCGTTGCCAGCACACGACTACTTCGAGTTCTTCGCCGCCGACCTGAGTCTTTATCCTCATCTCTACTCAAGAGCATACATTAATTTTAGGAATCCTGATGACATCCTTCTTTTTAGAGATCGTTTTGATGGGATATATCTTCCTTGACAGCAAAGATCCAGAATATAAGAAGTTTTTAGAAACCTACTGTGTGGAGGAAGAGAAGGCCAGTGCCAACCCTGAGACTCTGCTGGGGGAGATGGAGGCGAAGACAAGAGAGCTCATTGCTAGAAGAACCACACCTCTTTTGGAATATATTAAAAATAGAAAATTAGAAAAGCAGAGAATTCG
>NM_001353646.1
agggaggggagggaggggcgggggCCGGGCCTCCCAGCGCGGTACGCGGTGCCTTTTGAGCTCCTTGTCCACGCTCCGCCCCGGTGGGAACGGCCGCGCGCTCCCCGCAGGTGGTCATCCGCCGCCTGCCTCCGGGCCTCACCAAGGAGCAGCTGGAGGAGCAGCTGCGCCCGCTGCCAGCACACGACTACTTCGAGTTCTTCGCCGCCGACCTGAGTCTTTATCCTCATCTCTACTCAAGAGCATACATTAATTTTAGGAATCCTGATGACATCCTTCTTTTTAGAGATCGTTTTGATGGATATATCTTCCTTGACAGCAAAGATCCAGAATATAAGAAGTTTTTAGAAACCTACTGTGTGGAGGAAGAGAAGACCAGTGCCAACCCTGAGACTCTGCTGGGGGAGATGGAGGCGAAGACAAGAGAGCTCATTGCTAGAAGAACCACACCTCTTTTGGAATATATTAAAAATAGAAAATTAGAAAAGCAGAGAATTCGagaagagaagcgagaagaacggaggaggagagagttagaaaagaaacgtttgcgggaagaggaaaaaagaagaagaagagaagaagaaagatgcaaaaaaaaagagacagataaacagaagaaaattgcagagaaagaagtaagGATTAAGCTTCTTAAGAAACCAGAAAAGGGAGAGGAACCAACCACAGAGAAACCAAAAGAAAGAGGAGAGGAGATTGATACTGGAGGTGGCAAGCAGGAATCCTGTGCCCCCGGTGCAGTCGTAAAAGCCAGGCCCATGGAAGGCTCGCTGGAGGAGCCCCAGGAGACGTCACACAGCGGCAGTGATAAAGAGCACAGGGATGTGGAGAGATCTCAAGAACAAGAATCTGAAGCACAAAGATACCATGTGGATGACGGCAGGAGGCACAGAGCTCACCACGAGCCTGAACGGCTTTCCAGAAGGAGTGAGGATGAGCAGAGATGGGGGAAAGGACCTGGCCAAGACAGAGGGAAGAAGGGGAGCCAGGACAGCGGGGCTCCGGGGGAGGCCATGGAGAGACTGGGAAGAGCGCAGAGGTGTGACGACAGTCCAGCACCCAGAAAAGAGCGACTGGCAAACAAGGACCGGCCAGCCTTGCAGCTGTATGATCCAGGAGCTCGCTTCCGAGCGCGAGAGTGTGGCGGAAACAGGAGGATCTGCAAGGCAGAAGGTTCGGGGACTGGTCCTGAGAAGAGGGAAGAGGCAGAGTGAGTCACTGCACGCACCTGGCCTCCATGGACGAGCAAGGGCATCCCAGAAACGTGTAAATGACCCCGAGTGTGACTGGGAAGGAGAACTTATTCCTTACCAGGAAACTGGAAGCTAAAAATACAGAGGGTGACGTAGAAACACGCAGAAACCATTCTAAAGAAAGTAGTGATCTTGTATTAAATTGAGCAGAATTCTCACAGATTTTACCATTCCTGTTATAAACTAGTATTTGTTGTTTAGCCAAAACAGAAAATGATTTCCACTGGACAGTAGAAAAATATGTGTAAAATAGGGAAGAAAGTTAGTATTGGATCAGTGTGAGTCCTGAAGCACTTTCAGTGCTGTGAGAACGACATCCACTTTGGGTTTCATTCGTTTGTAAGCAGAGGAGCTGTCAGTCACTCGTGCTTCTCGGTGGCCTCTGAGCCATGGTGTCGAGTGAAGAGTAGTTCTTGTTTGTTACAACCTTTGTGAGTCAGCCATGCCCGCAAAGCGTGCTGTGTTTTAGTCCTGGTAGGAATATTTATCAGAGTTCACACTATATAAAACCCAACAGCTTCAACTATTGCCCTTTCAACAGTTTTGCCACTGACCGGATAGAAACGGTTTCAGTCTCTGGATGGATGTGTTTGTGGTTTGTAACCATTACGGTTTAAACCATGGTTTAAGAATTTGCCCAAATAACAGAAATTTTGTTCGGGAAGGGATAAACTAGATATAGCATACAGAGCCTGTTTTTGAGTTTTAGATACTTTATTTGTAAATAACTTAAAATAGCTTTCTGAAACCGTGCATTCTGTAGTTTCTTCCTTTCAGTGAAATTGCTAAATGTCAATGTATTTTTGGCACTGCGATTTTAACCATTTATTAAATAAAAATTTTGTTAAAGAAGTACTGAAA

Publications

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