Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name SF3A3P1
Plot displaying the genomic locations of a retrocopy (in chr20) and its respective parental gene (in chr1). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr20:3489302-3490908  UCSC
Coordinates (T2T) chr20:3520169-3521775  UCSC
Coordinates (hg19) chr20:3469949-3471555  UCSC
Strand -
Parental Sequence NM_006802.4
Parental seq. overlap 1544 bp
Parental seq. overlap (%) 55.6%
Genomic Region Intragenic (ATRN)
Retrocopy Summary SF3A3P1, located on chr20:3489302-3490908, is a retrocopy of the parental gene SF3A3. 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 SF3A3
Full Name splicing factor 3a subunit 3
Also known as PRP9|PRPF9|SAP61|SF3a60
Coordinate chr1:37956975-37990022
Strand -
Gene summary This gene encodes subunit 3 of the splicing factor 3a protein complex. The splicing factor 3a heterotrimer includes subunits 1, 2 and 3 and is necessary for the in vitro conversion of 15S U2 snRNP into an active 17S particle that performs pre-mRNA splicing. Subunit 3 interacts with subunit 1 through its amino-terminus while the zinc finger domain of subunit 3 plays a role in its binding to the 15S U2 snRNP. This gene has a pseudogene on chromosome 20. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2016]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes SF3A3P2
Bonobo Pan paniscus SF3A3P2
Gorilla Gorilla gorilla SF3A3P2
Orangutan Pongo abelii SF3A3P2
Gibbon Nomascus leucogenys SF3A3P1
Green monkey Chlorocebus sabaeus SF3A3P2
Crab-eating macaque Macaca fascicularis SF3A3P1
Rhesus Macaca mulatta SF3A3P1
Baboon Papio anubis SF3A3P2
Golden snub-nosed monkey Rhinopithecus roxellana SF3A3P2
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

>SF3A3P1
TCAATTCTGATCACCGCACTCAGGCCATGCAAGATAGGTATATGGAGGTCAGTGGGAACCTGAGGGATCTGTATGATGATAAAGATGGATTATGAAAGGAGGAACTCAATGCCATTTCAGGACCCAGTGAGTTTGCTGAATTCTATAATAGACTCGAGTAAATAAAGGAATTCCACCAGAAGCACCCAAATGAGATCTGTGTGCCAATGTCAGTGAAATTTGAGGAGCTCCTGAAGGCTCAGAGAATCCAAGTGAAGAGGCACAAAACTTGGTGGAGTTCACAGATGAAGAGGGATATGGTCGTTACCTCGATCTCCGTGACTGTTACCTCAAGTACATTAACGTGAAGGCATCTGAGAAGCTGGATTATATCACATACCTGTCCATCTCTGACCAATTATTTGACATTCCTAAAGAAAGGAAGAATGCAGAGTATAAGAGATACCTAGAGATGCTGCTTGAGTAACTTCAGGATTACACAGATAGAGTAAAGCCTCTCCAAGATCAGAATGAACTTTTTGGGAAGATTCAGGCTGAGTTTGAGAAGAAATGGGAGAATGTGACCTTCCTGGATGGGCGAAAGAGACAAGCAGCGCTCTGACCCATGCTGGAGCCCATCTTGACCTCTCCGCCTTCTCCTCCTGGGAGGAGTTGGCCTCTCTGGGTTTGGACAGATTGAAATCTGCTCTCTTAGCTTTAGGCTTGAAATGTGGCGGACCGTAGAAGAGCAAGCCCAGAGACTATTCAGTACCAAAGGAAAGTCCCTGGAGTCACTTGATAACTCTTTGTTTGCCAAAAATCCCAAATCAAAGGGCACCAAGCGAGACATTGAGAGAACAAAGACATTGCTTTTCTAGAAGCCCAGATCTATGAATACTCTGACTCTCAGGGAACAGCAACATCTCACTCATGAAAATGCACAGTGCAAGCAAGCAAGGACAGGAGAAGAGCAAGAAGAGCAGATCAGTAAGAGTGAGAGTGAAGATGAAAAGAACGAGATCATTTACAACCCCAAAAACCTGCCACTTGGCTGGGATGGCAAACGCATTCCCTACTGGCTATATAAGCTTCATGGCCTAAATATCAACTATAACTGTGAGATTTGTGGAAACTACACCTACCAAGGGCGCAAAGCCTTCCAGTGACACTTTGCTGAATAGCATCATGCTCATGGCATGAGGTGTTTGGGCATCCCAAACACTGCTCACTTTGCTAATGTGACGCAGATTGAAGATGCTGTCTCCTTGTGGGCCAAATTCAAATTGCAGAAGGCTTCAGAATGATGGCAGCCTGACACTGGAGGAAGAATATGAAGACTCAAGTGGGAATGTTGTGAATAAGAAGACATATGAGGATCTGAAAAGACAAGGACTGCTCTAGTGCTCAGGGATGTAGCTCAGCTTTTGGGCTAGCCCAGGCTTCCCTGAGATCTGTTTTTTCTATTTCTCCCAACCAAATTCTCTTAAAGACCCTTTGCTACGTAGTCTCATGGTCTAGCATGCATCCTGTAGAAACAAGGCATGCTGGCAGATTGCAGGGCTGAGATGTGTTTTATCTGTTTTATATTTTAAAAGATTCTGCCAGAAAATAAAACCAGACCTTGTTCa
>NM_006802.4
AGGAGTTGCTTCCGGCCGTGTTGGTGGTCTGAATTGAGAAGCCGCGACTAAGGGAAGATGGAGACAATACTGGAGCAGCAGCGGCGCTATCATGAGGAGAAGGAACGGCTCATGGACGTCATGGCTAAAGAGATGCTCACCAAGAAGTCCACGCTCCGGGACCAGATCAATTCTGATCACCGCACTCGGGCCATGCAAGATAGGTATATGGAGGTCAGTGGGAACCTGAGGGATTTGTATGATGATAAGGATGGATTACGAAAGGAGGAGCTCAATGCCATTTCAGGACCCAATGAGTTTGCTGAATTCTATAATAGACTCAAGCAAATAAAGGAATTCCACCGGAAGCACCCAAATGAGATCTGTGTGCCAATGTCAGTGGAATTTGAGGAACTCCTGAAGGCTCGAGAGAATCCAAGTGAAGAGGCACAAAACTTGGTGGAGTTCACAGATGAAGAGGGATATGGTCGTTATCTCGATCTCCATGACTGTTACCTCAAGTACATTAACCTGAAGGCATCTGAGAAGCTGGATTATATCACATACCTGTCCATCTTTGACCAATTATTTGACATTCCTAAAGAAAGGAAGAATGCAGAGTATAAGAGATACCTAGAGATGCTGCTTGAGTACCTTCAGGATTACACAGATAGAGTGAAGCCTCTCCAAGATCAGAATGAACTTTTTGGGAAGATTCAGGCTGAGTTTGAGAAGAAATGGGAGAATGGGACCTTTCCTGGATGGCCGAAAGAGACAAGCAGTGCCCTGACCCATGCTGGAGCCCATCTTGACCTCTCTGCATTCTCCTCCTGGGAGGAGTTGGCTTCTCTGGGTTTGGACAGATTGAAATCTGCTCTCTTAGCTTTAGGCTTGAAATGTGGCGGGACCCTAGAAGAGCGAGCCCAGAGACTATTCAGTACCAAAGGAAAGTCCCTGGAGTCACTTGATACCTCTTTGTTTGCCAAAAATCCCAAGTCAAAGGGCACCAAGCGAGACACTGAAAGGAACAAAGACATTGCTTTTCTAGAAGCCCAGATCTATGAATATGTAGAGATTCTCGGGGAACAGCGACATCTCACTCATGAAAATGTACAGCGCAAGCAAGCCAGGACaggagaagagcgagaagaagaggaagaagagcagatcagtgagagtgagagtgaagatgaagagaacgagaTCATTTACAACCCCAAAAACCTGCCACTTGGCTGGGATGGCAAACCTATTCCCTACTGGCTGTATAAGCTTCATGGCCTAAATATCAACTACAACTGTGAGATTTGTGGAAACTACACCTACCGAGGGCCCAAAGCCTTCCAGCGACACTTTGCTGAATGGCGTCATGCTCATGGCATGAGGTGTTTGGGCATCCCAAACACTGCTCACTTTGCTAATGTGACACAGATTGAAGATGCTGTCTCCTTGTGGGCCAAACTGAAATTGCAGAAGGCTTCAGAACGATGGCAGCCTGACACTGAGGAAGAATATGAAGACTCAAGTGGGAATGTTGTGAATAAGAAGACATACGAGGATCTGAAAAGACAAGGACTGCTCTAGTGTTCAGGGATGTAGCTCAGCTTTTGGGCTAGCCCAGGCTTCCCTAAGATCTGCTTTTTCTATTTCTCCCAACCAAATCCTCTTAAAGACCCTTTGCTATGTAGTCTCATGGTCTAGCATGCATCTTGTAGAAACAAGGCATGCTGGCAGATTGCAGGGTTGAGATGTGTTTTATCTGTTTTATATTTTAAAAGATTCTGCCAGAAAATAAAACCAGACCTTGTTCTAAAGCCCAGGGTTATGGACCAACTCAGTGCTTCAGGTCTTAACGCCTCCATACCTCTTCCTCACCAACTTTACTAGTAGCTGAGATTTAATGGGCACCTATTATGCTACATATCATGTTAGGTAAATCTGACCTGACCTCTTTCCCCACCCTCCTTTGTTGCTGCTTCCCTGAATGAGTATTACCCCAGGATGAGGTCTGCCATCAGCTTAGTTAGCCATTGATGCAAATACTAGGGAAAGACTAGGAGGATGAGCCAGGGTTGCTACTAAGGACTAAGTGTCGCACCAAGGTTTGCCTTTTGTATTTGCATAAAGAAAGGAGTTGGAgctgggtgcagtggcttgtgcctgtagtcccagctacttgggaggctgaggcaggagggttgcttgagactagcctaggtaacatagtgagaccctgtctcattaaaaaaaaaaaaaaggcatggtggcacgcactgtagtcccagctactcaggagactgaggctagaagatcctttgaacctaggagtttgagaccagcctgggcgatatagtgaggccccatctcaaaaaaaaaaaaaGGGGGGGGGGGGGGAGTTGGGCTGTGTTGGAATGGGCCTGCAGCCCAACAAACAAGGGAACTAGGACCGACAGTGACTTCACCAGCTTGCTAGGTCAGAATGAGAGACTGGTGGGTCTGTCTACCTGTTTCTTCTACAAGATCCCTATTTGACTGTAAAAGTAGCTAATACTCACATGTTCTCCAATCCCAGGTAGCCATGGTAGAGTTGGGTAGAGTTGAGCAGCTGCCCCAGGATCCAAATGTGGTGTCTGAAATGGAAAGAACTAAGGCAACCAGGAAGGCACTGATCTGCCTTATAAGCACAGTCATCTGAAAGTCAGGCCTGCTGCAGGACAGGATCCCCCAGAGACCCCATTTGCCTCTCAACACTCAGACCTTCAACTGTTTTTTAATAAATCTACTTTTTAAAAAAA

Publications

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