Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name SUB1P4
Plot displaying the genomic locations of a retrocopy (in chr16) and its respective parental gene (in chr5). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr16:23537066-23537560  UCSC
Coordinates (T2T) chr16:23812849-23813343  UCSC
Coordinates (hg19) chr16:23548387-23548881  UCSC
Strand +
Parental Sequence NM_006713.4
Parental seq. overlap 305 bp
Parental seq. overlap (%) 8.8%
Genomic Region Intragenic (EARS2)
Retrocopy Summary SUB1P4, located on chr16:23537066-23537560, is a retrocopy of the parental gene SUB1. 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 SUB1
Full Name SUB1 regulator of transcription
Also known as P15|PC4|p14
Coordinate chr5:32531778-32604079
Strand +
Gene summary Enables identical protein binding activity; single-stranded DNA binding activity; and transcription coactivator activity. Involved in negative regulation of DNA metabolic process and regulation of transcription by RNA polymerase II. Located in nucleolus and nucleoplasm. Part of transcription regulator complex. [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes SUB1P3
Bonobo Pan paniscus SUB1P3
Gorilla Gorilla gorilla SUB1P3
Orangutan Pongo abelii SUB1P3
Gibbon Nomascus leucogenys SUB1P1
Green monkey Chlorocebus sabaeus SUB1P1
Golden snub-nosed monkey Rhinopithecus roxellana SUB1P3
Marmoset Callithrix jacchus SUB1P3
Crab-eating macaque Macaca fascicularis Without Homology
Rhesus Macaca mulatta Without Homology
Baboon Papio anubis 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

>SUB1P4
GAATCAAAGGAACTTGTTTCTTCAAGCTCTTCTGGCAGGAATTCTGACAGTGAGTTTGACAAAAAGTTAAAGAAGAAAAAGTAAGTTGCTCCAGAAAAACTTGTAAAGGAACAAAAGACTGGCAAAACTTTGGGAGCTCTGTCATCTTCCAAACAGAGCAGCGGCAGTAAACATAATAACATGTTTATTTTCTcTGATAACATGTTTCAGATTGGGAAAATGAGGTACCTTAGTGTTTGGGATGTTAAAGGGGAAGTGCTAATTGATGGTATTAGAGATTATTGGATGGATCTCAAAGGTTAAATAAAACCAGGAAGAAAAGGTATTTCTTTAAATCCACAGCAATGGGGCCAGCTGAAGAAACA
>NM_006713.4
ACTTCCGGTTCTCTGTCAGTCGCGAGCGAACGACCAAGAGGGTGTTCGACTGCTAGAGCCGAGCGAAGCGATGCCTAAATCAAAGGAACTTGTTTCTTCAAGCTCTTCTGGCAGTGATTCTGACAGTGAGGTTGACAAAAAGTTAAAGAGGAAAAAGCAAGTTGCTCCAGAAAAACCTGTAAAGAAACAAAAGACAGGTGAGACTTCGAGAGCCCTGTCATCTTCTAAACAGAGCAGCAGCAGCAGAGATGATAACATGTTTCAGATTGGGAAAATGAGGTACGTTAGTGTTCGCGATTTTAAAGGCAAAGTGCTAATTGATATTAGAGAATATTGGATGGATCCTGAAGGTGAAATGAAACCAGGAAGAAAAGGTATTTCTTTAAATCCAGAACAATGGAGCCAGCTGAAGGAACAGATTTCTGACATTGATGATGCAGTAAGAAAACTGTAAAATTCGAGCCATATAAATAAAACCTGTACTGTTCTAGTTGTTTTAATCTGTCTTTTTACATTGGCTTTTGTTTTCTAAATGTTCTCCAAGCTATTGTATGTTTGGATTGCAGAAGAATTTGTAAGATGAATACTTTTTTTTAATGTGCATTATTAAAAATATTGAGTGAAGCTAATTGTCAACTTTATTAAGGATTACTTTGTCTGCCCACCACCTAGTGTAAAATAAAATCAAGTAATACAATCTTAACTGTTGTGGCCTTTTTTGATCATAAGAGTTGGTACTGTTTAAGGCCAAAAGTAACAGTTTTTATAGATCTTTTAGTTTCAACTCAGCTTTTACAATAAAAAGGATTTGTATTGCATTGAGTTTATAAACTTTTGGTTTGTGAACTTCATATTTGATCTTTTCTCTTCCAATCAAATGTCTAGGCTTGTTTGACTTCCACCCCCAATGGTTTTTCACTCTTTTTATTTACTTCATTTTCCTTTAATAACTTAATCTCTTCATGTTCAGTTTTTACTTCACTCTTTATTCTTTTCTTTGATTATGGTATGCTTATTTGGAAAGTCAGTGAAACTGTCAAAATGTTATCTCAATAAGATACTTATATGAGAACTACAATCACCGAATCTACTGTATTCAATATTAGCAGATCTAATTTGATAAACAACATGGCTTGTGTGAAAACTGAGCAGGTGTTTGTTTACCCATAGTGTTCTGTGTAGTTATTGCTTAGTCTGCAGAAAATAATGACTTAGATGAGATGTCTGACTTGCTTTCACTTATTAAACATGTTCACCATGGGATGATGTCTGTAACATCAGATATTGTTCAACTAGACTAGGATTTAATAAAAATTGTGAAAGCTTACTGGCCTAACATTTTATTTTATAATATTGGGTATGAATTATATGTAGCCAGAGATGTCATTAAGCTTTACTGTTATAGTAGGTAATATGGTTAGTTTGTAGGGAAAAGAGCATATGAGCACATGCTTGTGTATTTTGGCCTTTGCCCCAGTAGAACAGACCAATGGCATTCTAGACTTGATGATACTAAGTTTTAGCAGACACTAGTAAGTGGTTTGTATTTAACCATACTGATGAAGCAGACAGATTGAGGCACAGATTTTAGTGGCTTTGTGGCAATAAATAGGGCATGGTGTGCCTTAGGAAAAGAATGTTTATAAAGGGAATTATAACTGAAATTAAAGGAGGCGGCAGTGAAGAGGAAATAATTCTCTTCTATCTAAATGATATACATATGATATTTTGAGATTTTTATAACAGCAGTGGAACACAATTCTAGGTAGAGTAGAAAAAGGAAAGTTTTAAAGACATATAAAAGATTCTTGTTGACAAATTATTTTTGGTAGCAAATCTCAAATGGTTACCTGCTATTAAGGTCTGCCATATTAGAGTTTTGCACTATTTTGCTACCAAGTTTGATTCATACATCTAAAACATTTTGTAGTTACTTGTCAAGGACTTAATTTGAAAATCATTTGCCAGGCCACATAGTTATCAATTTTTTTTTCTATCAGCTATTCTGTTGTATTTCTAAAACATTTTTTAGATGACTTTTTAAAGTATATTTAGCAGTAACCTTATGAGGTTCAAATTGGTAAATCTCTTGTAATTTAGCCTTCATCGAATAATAGGTACCAGTGTATTAAAAATGTGTATTTTTTgcagccccttgaaccagagtaggttcagagaaactccCAAAGTTTGTACTTTAGACACATCATGCTTGATTGGTAACTTCCCTCCTTTTTTGGGGAACATGTTTGTGTCCTATTAACTTAATTGGATAGATTTTTAAATATTTCTTATTTTTGGCACACGGAAAGGGTAGTTCGAGTACAGAACTTTGATTTTTGGTGTAGATGCAGAGGGAATGATGGGTAAATTTCCTAGGTTTATGTGAATTTAGGGGGTGTATGCATTTTGAAACAATCTACTAACAGATGGTGCTGAAATCTATTACCTACATGTTTTCTAGTTGTTCAGCATTATGTTAATGAAGCCTCCATATAAGGAGTGTTTCTCTGGCACAGTTGGTAAGTTGACTGCTAACTTCATTTAAATGTGTTACTGGATATGCAGTATACTGAAATTATTAATCAGTTTGTGTATAGGAAAAGAGAACTGGGTTAAAAGCAAATTAACTTGTTCTGAAAAGAAAGTATAGATTAATTTTGTTTTCTGTTTAAATTTTATCTCCTTGGTAAAGATTTTTTTTTCCTGGGCAGAAAACTTGGCATTTTTAGGCGTAGATACCTTACCTTACAATGCCAAAATGAATTTAATTCCAGTACTCAGGTTTTTCCCTTTAACAGACTCTATGTGTATCAGGGCTTTCTAATGGGTTTTTCCTCTTCGTTTTTAAAATGTGAGTAGCATTTGACCAATTTCCAGTGCTCTTAGCATTTTACTTAAAGAACAACCACTACAAAAGAAAATCTTTGTAATTTGATTGTCTTTTGCTTTGCTTCATTAATGCCTAAGAACTTAAGAATACTCCTACCTCATTAGCTACTCAAGATGCTGTGACGATCAAATCTATTCTACATAATGCGTTTAGAAACAAAGACTTGGGTGAAAAATGAAATAAGTATATTCTGACTTGGCTATTGAGGGGAAAATTCAGTATTAAGTGTTCCTCACAGGAGATATGTTAGCAGAATACTATAAAAGTTTGAAATTTTTAAAAAGTAAAAGTACTTAAATTTAGGTATCTCTCCTGAAATTCTTTGCAGTTCATTTTTTATGGCAGTTAATCCAGTGAAACACTCAAAAGTTTTTTTTTTTTTAAAAGTGTTTTTCCAGATAAACTGTAGGGTGAACATTCACATAATCACAAATATGTAATTCTGTAATTGTGGAATGCTTGTATGCTTTGTTTTCGTACATCTTCCATGGAGATGTCTGAATATAATACTCCATCTGTGAATATTTTAAATGTTGAAATAAAAGTAAGAAATGTG

Publications

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