Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name SINHCAFP3
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Plot displaying the genomic locations of a retrocopy (in chr8) and its respective parental gene (in chr12). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr8:23632143-23635633  UCSC
Coordinates (hg19) chr8:23489656-23493146  UCSC
Strand -
Parental Sequence NM_001135812.2_2
Parental seq. overlap 1556 bp
Parental seq. overlap (%) 39.6%
Genomic Region Intergenic
Retrocopy Summary SINHCAFP3, located on chr8:23632143-23635633, is a retrocopy of the parental gene SINHCAF. 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 SINHCAF
Full Name SIN3-HDAC complex associated factor
Also known as C12orf14|FAM60A|L4|TERA
Coordinate chr12:31280584-31326218
Strand -
Gene summary Involved in negative regulation of cell migration. Part of Sin3 complex. [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes SINHCAFP1
Bonobo Pan paniscus SINHCAFP1
Gorilla Gorilla gorilla SINHCAFP1
Gibbon Nomascus leucogenys SINHCAFP2
Green monkey Chlorocebus sabaeus FAM60AP2
Crab-eating macaque Macaca fascicularis FAM60AP1
Rhesus Macaca mulatta SINHCAFP1
Baboon Papio anubis SINHCAFP1
Golden snub-nosed monkey Rhinopithecus roxellana SINHCAFP1
Marmoset Callithrix jacchus SINHCAFP5
Orangutan Pongo abelii 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

The Genotype-Tissue Expression project - (GTEx)

Adipose SubcutaneousMuscle SkeletalArtery TibialArtery CoronaryHeart Atrial AppendageAdipose VisceralUterusVaginaBreast Mammary TissueSkin Not Sun ExposedMinor Salivary GlandBrain CortexAdrenal GlandThyroidLungSpleenPancreasEsophagus MuscularisEsophagus MucosaEsophagus Gastroesophageal JunctionStomachColon SigmoidSmall Intestine Terminal IleumColon TransverseProstateTestisNerve TibialSkin Sun ExposedHeart Left VentricleBrain CerebellumWhole BloodArtery AortaPituitaryBrain Frontal CortexBrain CaudateBrain Nucleus AccumbensBrain PutamenBrain HypothalamusBrain Spinal CordBrain HippocampusBrain Anterior Cingulate CortexOvaryBrain Cerebellar HemisphereLiverBrain Substantia NigraKidney CortexBrain AmygdalaCervix EctocervixFallopian TubeCervix EndocervixBladderKidney Medulla00.10.20.3
log10(TPM+1)

Related Sequence

>SINHCAFP3
GAGTTGCACATAATATTTAATATTTAAGATGCTATTTCATAGGAAAGCTGAATGCTGCTGTAAAGTACTCTTTAAGTCTTGTTTTAAAATCCCCTTCTAATGAATGAAACTAGGGGAGTTTCAGGGGACAAAGGCAGGATTTGTTTATGATAAACTGTAACTTTTAGTCTTTCTGTATTGAGAAGCAGTGGTTGGGGCATTTTTTAAGATGGCTAGCTACACTTGTTTTCCCTTATGATAATAAATTTGTCATAACTCAGTAACATGGACTTTCCCCTAGAGGTAGCTGTTAATAATTTTGAAATATTAAGGTCTTGCCTAGGTTCTGATGATTCAACCTGTACTACTGATTATTAAGCAGGACAGACTGAGCTTTCTGTTGCAAATACCTTGGAGGAGAAAGTAATTTCTCAATATATAGAGAAGTAACTTGACTGTATACGTTGCGTCCTGTGCTACCTCCCTTCATATTAATATTTGACAAAGATTTTAATGTACGTGAAACTTTTAAAGCAGAATCAAAGCTTCTCTTGGGGAAATGGCAAGACAGGTGAGACCCTGCAGGAATAGTGCCAAGGCATTATCACATGGTAGAGAACACACCCTATTAAAAATGTTAAACTATCTGAAAAATACAATGCGCAAGTCTTCAGGATGGCACAAAACAAAGGTTAATGCTACCTGGGGCACATTTCTTAGAGGGCTTGCTGAGTTTGTAAATAATCAGCTTTTGCTTGTGTTACATGACTTTGATGACTTCATTGAAAATCTGCACAATTCAGTTTCAGCTCTGGATTACTTCAGTTGACCTTTGTGAAGGCTTTTACCTGTGTAGAGCAAGTGTTTGACTTGTTTCAGCCTATTAGGTTTTTATTTTCTTTTACTCTGTATTAAAAGCAAATTTTTCTAAAAGAAAAGAGGTTTCTGTTCACGTTAAGCGGGTAGGTTTTTGTTTGGCTTCTTTTATTCAGGCTTTCTGAACATTGAGATAACTAACCTGAACTTAGAGCCCTTCAATCCTAAAATCCTCATGAAAAGCCTCTCACTCGAACCCAAACCAAAGCACTCTTACTGCCTCTTTTCTAAATGTTCAGGAAAAAGTATCACCAGTTCAGTCTTTTCATAATGAGGGAGAAGCACTTGCCTGCCTTGTAATAACAAGACTCAGTGCTTATTTTTCAAACTGAATTTTAAAAATCGGATAGTATAACAATAAGGAGTGAGCCACCTTTTATGGGCACCCTGTAGATTTATAGTTCTTAATCTAAACATTTTATATTTCCTTCTTTTGGAGAAAACCTACATGCTACAAGCCACCATATGCACAGACTATACAGTGAGCTGGGTCAGCTCTCCCTCAGTCTTTGAGGCGAATTACAAAAGTCCAGCCATTGTCATCCTCCTGAGTTATTTTGAAAATTTTTTTTGTATATGTTGGCTGCAGCATTAGTGGTAGAATATACTATGCTATGGATCATCTCTACTCCTGTATTTATTTGTTTATTGCTAGACCTCAACCACAGTCTTCTTCTTCCTCTTCCACCTCTCTTCACCTGTAGGATGTACTATATGTAGTCATGCACTTTGTATTAATATATTAGAAATCTACAGATCTATTTTGTACTTTTTATACTGTTGGCTACTTATAATCAAAACTTTTACTAGGGAATTGAATAAGTCCAGTCTTATTAGAAATCAAAGCCTCTGTCCATCCCCACTCAGGAGTAGAGACTGAAGTTTTCATGTAAAAGGGGAACCAAAAAAATCTAAATTTTGAAAAGACCACAAAGCAACAATCTGACCCTCCTATTTTTCACTTGGATACCTGCTATTCTGCCAAAAGACAATTTCTAGAATAGTTTTGAATGGGTTGATTTTCCCCCAGTCCCACAAACTTTGAAGCCAGTGTCTAGCTCACTAAAAAAAGAGTTGCACCTGGAATCATGTGGTAGTTACAAGGCCTGGACCCAGTATAAAGAGTACATTGAAACCATAGAAAGTGAAAACTCTATCCGAGAACAGGATAAAAAGCATCCAGATCAGTAAACTGCAGAAGGAATTTGAACGTCATAATTCTGATGCTCACAATACCACCTCAAATGCGCCCCCAGCTCAATCTCCTTGTAACAGTAACCAGTTAGATGATAGCTCAGATACAGAAATGGTTTCTGGTTCTAACAGAACGCCAGTTTTTTTCCTTTTTAGAGCTCACATACTGGAAAAGACAGAAGAGACATTGTGGGGTCATCTATAAAGGCTGTTTTGGGGAAGTCCTCATCAACACACATCTCTTCAAGTCTTGCTGCAGTCATAAGAAAGCAGCTGCTAGACAAGGCAGTTGAGGAGGAGGGGGCGCTTGAGGCGAGGCTGACCCGGCATGCACTCCGCACCTCGGGGACGTTATTTCGCGTGGAACAGCTGCTTTTGGAAGACTATTGCCCAGAAGAAAAGATGTTTGATTTTCATAAGCAAAAGACGTACCAAAGTATAGAAGGCTGTTGTATTTGCAGAGCTAAGTCCTCCAGTTCTCGATGCACTGACAGTAAATGCTATGAAAAGGACTTCCAGAGCCATTTTGGATTACATGAGACTTGCTCAGGAGACATCTGCAATGCTTGTGTCCTGCTTGTAAAAAGACGGAAGAAGGTGAGAGCAGGATTa
>NM_001135812.2_2
AGAACTGCAGGAGACTATCTTTCTAGACAAGGCAGTTGAGGAGGAGGGAGCGCTTGAGGGGGACTGGCCTGGCGTGCACTCCGCACCTCGGGGACATTATTGCGCGTGGAACGGCTGCTTTTGGAAGACTATTGCCCAGAAGAAAAGATGTTTGGTTTTCACAAGCCAAAGATGTACCGAAGTATAGAGGGCTGCTGTATTTGCAGAGCTAAGTCCTCCAGTTCTCGATTCACTGACAGTAAACGCTATGAAAAGGACTTCCAGAGCTGTTTTGGATTGCATGAGACTCGTTCAGGAGACATCTGCAATGCCTGTGTCCTGCTTGTGAAAAGATGGAAGAAGTTGCCAGCAGGATCAAAAAAAAACTGGAATCATGTGGTAGATGCAAGGGCTGGACCCAGTCTAAAGACTACATTGAAACCAAAGAAAGTGAAAACTCTATCTGGGAACAGGATAAAAAGCAACCAGATCAGTAAACTGCAGAAGGAATTTAAACGTCATAATTCTGATGCTCACAGTACCACCTCAAGTGCCTCCCCAGCTCAATCTCCTTGTTACAGTAACCAGTCAGATGACGGCTCAGATACAGAGATGGCTTCTGGTTCTAACAGAACACCAGTTTTTTCCTTTTTAGATCTCACTTACTGGAAAAGACAGAAGATATGTTGTGGGATCATCTATAAAGGCCGTTTTGGGGAAGTCCTCATTGACACACATCTCTTCAAGCCTTGCTGCAGCAATAAGAAAGCAGCTGCTGAGAAGCCAGAGGAGCAGGGGCCAGAGCCTCTGCCCATCTCCACTCAGGAGTGGTGACTGAGGTTTTTATGTAGAAGGGGAACAAAAAAAAAAATATCTGAATTTTGAAAAACCACAAAGCTACAAACTGACCCTCttttttttttgagacggagttttgctcttgttacccaggctggagtgcagtggcgtgatcttggctcactgcaacttccgtctcccgggttcaagtgattctcctgcctcagcctcccaagtagctgggtttataggtgcccgccaccagacccggctaattttttagttttagtagagacggggtttcaccacgttggccaggctggtcttaaaTGACCCTCTTATTTTTAACTTGGATACCTGCTATTCTGCCAAAAGACAATTTCTAGAGTAGTTTTGAATGGGTTGATTTCCCCCACTCCCACAAACTCTGAAGCCAGTGTCTAGCTTACTAAAAAAAGAGTTGTATATAATATTTAAGATGCTGAGTATTTCATAGGAAAGCTGAATGCTGCTGTAAAGTGCTCTTTAAGTCTTTTTTTTTTTTAATCCCCTTCTAATGAATGAAACTAGGGGAATTTCAGGGGACAGAGATGGGATTTGTTGTATGATAAACTGTATGTAGTTTTTAGTCTTTCTGTTTTGAGAAGCAGTGGTTGGGGCATTTTTAAGATGGCTGGCTACTCTTGTTTTCCCTCATGATAATAAATTTGTCATAACTCAGTAACATGAACTTGCCCCTAGAGGTAGTTGTTAATAATTTTGAAATATTAAGGTCTTGCCAAGCTTCTGATGATTCACACCTGTACTACTGATTATTAAGCAGGACAGACTGAGCTTTCTGTTGCAAATACCTTGGAGGAGAAAGTAATTTCTAAATATACAGAGAGGTAACTTGACTATATATGTTGCATCCTGTGCCTCCCTTCATATTAATATTTGATAAAGATTTTAATTTATGTAAAACTTCTAAAGCAGAATCAAAGCTCCTCTTGGGGAAATGGCAAGTCTTTAGGATAGGCAAGACCCTGTATGAATAGTACCAAAGCATTACCGCATGGTAGAGAACACACTCGATTAAAAATGTTAAGCTATCTGAAAAATAAAATGTGCAAGTCTTCAGGATGGCACAAAACAAAGGTTAATGCTTCTTGGGGCACATTTCTTAGAGGGCTTGCTGAGTGTGTAAATATAATCGACTTTTGTTTGTGTTACATGACTTCTGTGACTTCATTGAAAATCTGCACAATTCAGTTTCAGCTCTGGATTACTTCAGTTGACCTTTGTGAAGGTTTTTATCTGTGTAGAATGGGTGTTTGACTTGTTTTAGCCTATTAAATTTTTATTTTCTTTCACTCTGTATTAAAAGTAAAACTTACTAAAAGAAAAGAGGTTTGTGTTCACATTAAATGGTTTTGGTTTGGCTTCTTTTAGTCAGGCTTTCTGAACATTGAGATATCCTGAACTTAGAGCTCTTCAATCCTAAGATTTTCATGAAAAGCCTCTCACTTGAACCCAAACCAGAGTACTCTTACTGCCTCTTTTCTAAATGTTCAGGAAAAGCATTGCCAGTTCAGTCTTTTCAAAATGAGGGAGAAACATTTGCCTGCCTTGTAATAACAAGACTCAGTGCTTATTTTTTAAACTGCATTTTAAAAATTGGATAGTATAATAACAATAAGGAGTAAGCCACCTTTTATAGGCACCCTGTAGTTTTATAGTTCTTAATCTAAACATTTTATATTTCCTTCTTTTGGAAAAAACCTACATGCTACAAGCCACCATATGCACAGACTATACAGTGAGTTGAGTTGGCTCTCCCACAGTCTTTGAGGTGAATTACAAAAGTCCAGCCATTATCATCCTCCTGAGTTATTTGAAATGATTTTTTTTGTACATTTTGGCTGCAGTATTGGTGGTAGAATATACTATAATATGGATCATCTCtacttctgtatttatttatttattACTAGACCTCAACCACAGTCTTCTTTTTCCCCTTCCACCTCTCTTTGCCTGTAGGATGTACTGTATGTAGTCATGCACTTTGTATTAATATATTAGAAATCTACAGATCTGTTTTGTACTTTTTATACTGTTGGATACTTATAATCAAAACTTTTACTAGGGTATTGAATAAATCTAGTCTTACTAGAAAATAAAA

Publications

PMID - Link Title
No publications available for this retrocopy