Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name RP9P1
Plot displaying the genomic locations of a retrocopy (in chr2) and its respective parental gene (in chr7). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr2:20291089-20292131  UCSC
Coordinates (T2T) chr2:20324613-20325655  UCSC
Coordinates (hg19) chr2:20490850-20491892  UCSC
Strand -
Parental Sequence NM_203288.2
Parental seq. overlap 864 bp
Parental seq. overlap (%) 70.1%
Genomic Region Intragenic (PUM2)
Retrocopy Summary RP9P1, located on chr2:20291089-20292131, is a retrocopy of the parental gene RP9. 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 RP9
Full Name RP9 pre-mRNA splicing factor
Also known as PAP-1|PAP1
Coordinate chr7:33094797-33109404
Strand -
Gene summary The protein encoded by this gene can be bound and phosphorylated by the protooncogene PIM1 product, a serine/threonine protein kinase . This protein localizes in nuclear speckles containing the splicing factors, and has a role in pre-mRNA splicing. CBF1-interacting protein (CIR), a corepressor of CBF1, can also bind to this protein and effects alternative splicing. Mutations in this gene result in autosomal dominant retinitis pigmentosa-9. This gene has a pseudogene (GeneID: 441212), which is located in tandem array approximately 166 kb distal to this gene. [provided by RefSeq, Sep 2009]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes RP9P1
Bonobo Pan paniscus LOC100981379P1
Gorilla Gorilla gorilla LOC101125582P1
Orangutan Pongo abelii LOC100433905P1
Gibbon Nomascus leucogenys LOC100602814P1
Green monkey Chlorocebus sabaeus RP9P1
Crab-eating macaque Macaca fascicularis LOC102123115P1
Rhesus Macaca mulatta RP9P1
Baboon Papio anubis LOC101017922P1
Golden snub-nosed monkey Rhinopithecus roxellana RP9P1
Marmoset Callithrix jacchus RP9P1
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

>RP9P1
GCAGCTCATGCACCTGGAGTCCTTTTATGAAAAAACCTCCTCCTGGGCTTATCAAGGAAGATGACACTAAGCCAGAAGACTGCATACCAGATGTACCAGGCAATGAACATGCCAGGGAATTTCTGGCTCACACACCAACTAAAGGACTTTGGATGCCACTGGAGAAAGAAGTCAAAGTTAAGCACTTACTTTTCATTGGATTGCTTCATAATTTCTTGGTGATGGAAAATTCATTCCTAAAGCAACAAGATTAAAGGATGCTTGGGTTGGCGTTGCAAACGGTATGGTCACCAAATGGGCGACAAACAATGCCCTTTCTTTATCAAAGGTAACTGAAAGAGCAGTTCAGAGTAGCACATGAAGATCCCATATATGGCAGCATGTGAGGCAATAAAAGACATGAAAAGGATGTAAGGATACAGCAGTTAAAACAGTTATTGGAGGATTCTATCTTGGATGAAGATGGGAGCAGCTCCAGTTCCTCTGAAGTAAAGAGAAACACAAGAAAAAGAAGAGGAAAGAAAAGGAAGAAAGAAAAGAAAAAGAAGAAAAAATGGAAGTACAAATCTTCCAAGTCAAATGAGAGTTCTGACTAAGGGTGACGAGGACTTGACTTGTTCAACATTCTCTTCTCAAGAATTAAACACTGTAGCCAAGGAACAGAGGAATATGCAGTCGGTCGGATAAAGTACCAGAATAGAGACGCCGAGCGAGGAGGATATGTGGGTCACAGCAGTGAGCTCCCACCTGCCTTCCAGTGAAGATGTGACCCCAGGAGAAGTATCTCCTTCCATGTACTAGCTCTGGACAGAGGCTGACTTTAGGCAGGAAAGTTTCTTCGATGTTGTCCTCCCTGCTGGTCACATGAGTTTACCATTCATTCTTTTGAAATGTCTTCCACAAGGTGGCAGGACTGAGGGAATCTCTAAGGCATGTCTTCCAGGCCCTGCCACAGCTTGTGCCTTCCACAGTGTGGACTCAGTTCCAGCAGATGTCAGGCTGGAGTCTTCTCTGTTGTTGAGAATAATAAAAGCTCa
>NM_203288.2
GGGGTTGCCCGAGCGGCGCTGCGGGGGCTGACATGTCGTCCCGGCCTGGGCGCGAGGACGTGGGggctgcgggcgcgcggcggccgcgtgagccgccggagcaggagctgcagcgacgtcgggagcagaagcggcggcgacacgacgcgcagcagctgcagcagcTCAAGCACCTGGAGTCCTTTTACGAAAAACCTCCTCCTGGGCTTATCAAGGAAGATGAGACTAAGCCAGAAGATTGCATACCAGATGTACCAGGCAATGAACACGCCAGGGAATTTCTGGCTCATGCACCAACTAAAGGACTTTGGATGCCACTGGGGAAAGAAGTCAAAGTTATGCAGTGTTGGCGTTGCAAACGCTATGGTCACCGAACGGGTGACAAAGAATGCCCTTTCTTTATCAAAGGCAACCAAAAGTTAGAGCAGTTCAGAGTGGCACATGAAGATCCCATGTATGACATCATACGAGACAATAAACGACATGAAAAGGACGTAAGGATACAGCAGTTAAAACAGTTACTGGAGGATTCTACCTCAGATGAAGATAGGAGCAGCTCCAGTTCCTCTGAAGGTAAAGAGAAACACaagaaaaagaagaagaaagaaaagcataagaaaaggaagaaagaaaagaaaaagaagaaaaaACGGAAGCACAAATCTTCCAAGTCAAATGAGGGTTCTGACTCAGAGTGACAAGGATGTGACTTGTTCAACATTCTCTTCTCAAACACTGACCAAGGAACAGAGGAAGATGCAGTCAGAGAAAGCAGCAGGATAGAGACGCCGAGAGAGGAGTATATGTGGGTCACAGCAGTGAGCTCCCACCCGCCTTGCAGTGAAGATGTGACCCCAGGAGAGGGAGTGTCTCCTTCCAGGTGCTAGCTCTGGACAGCAGCTGATTTTAGGCAGGAAAGTTTCTTCATCGTTGTCCTCCCTGCTGGTCACATGAGTTTACGATTCCTTTGAAGTGTCTCCCACAGGGTGGCAGGACTGGGAGAATCTCTGAGGCGTGTCTTCCAGGCCCTCCCACAGCTTGTGCCCTCCACAGTGTGGACTCAGGTCCCATAGACATCAGGCTGGAGTCTTCTCTGTTGTTGAGAATAATAAAAGCTCATTATTTATTTTTTAAA

Publications

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