Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

Summary

Retrocopy Name RAP1AP1
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Plot displaying the genomic locations of a retrocopy (in chr17) and its respective parental gene (in chr1). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr17:28443375-28445626  UCSC
Coordinates (T2T) chr17:29385231-29387482  UCSC
Coordinates (hg19) chr17:26770393-26772644  UCSC
Strand -
Parental Sequence NM_001010935.3
Parental seq. overlap 1058 bp
Parental seq. overlap (%) 20.4%
Genomic Region Intergenic
Retrocopy Summary RAP1AP1, located on chr17:28443375-28445626, is a retrocopy of the parental gene RAP1A. 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 RAP1A
Full Name RAP1A, member of RAS oncogene family
Also known as C21KG|G-22K|KREV-1|KREV1|RAP1|SMGP21
Coordinate chr1:111542009-111716695
Strand +
Gene summary This gene encodes a member of the Ras family of small GTPases. The encoded protein undergoes a change in conformational state and activity, depending on whether it is bound to GTP or GDP. This protein is activated by several types of guanine nucleotide exchange factors (GEFs), and inactivated by two groups of GTPase-activating proteins (GAPs). The activation status of the encoded protein is therefore affected by the balance of intracellular levels of GEFs and GAPs. The encoded protein regulates signaling pathways that affect cell proliferation and adhesion, and may play a role in tumor malignancy. Pseudogenes of this gene have been defined on chromosomes 14 and 17. Alternative splicing results in multiple transcript variants. [provided by RefSeq, May 2014]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes RAP1AP2
Bonobo Pan paniscus RAP1AP2
Gorilla Gorilla gorilla RAP1AP1
Orangutan Pongo abelii RAP1AP2
Green monkey Chlorocebus sabaeus RAP1AP1
Crab-eating macaque Macaca fascicularis RAP1AP2
Rhesus Macaca mulatta RAP1AP2
Baboon Papio anubis RAP1AP2
Golden snub-nosed monkey Rhinopithecus roxellana RAP1AP2
Marmoset Callithrix jacchus RAP1AP2
Gibbon Nomascus leucogenys 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 Medulla00.050.1
log10(TPM+1)

Related Sequence

>RAP1AP1
TGAGCTATTTTGTGACCTGGTCACAGATAAATAGAAAAACACCAGTGGAAAAGAAGAAACTTAAAAAGAAATCATGTTTGCTGCTCCAGGTCCATAGTCAGCAGCAGCTCTGAGCCAGATTACAGGAATGAACTGTTGCCTACTTGGAAAGTGCCAGCATTCTAGACTTCAAAAAATCAATCTGAGGAACTTCTCCTGTTTTACATATTATGTGAAGAATTTAGATCTTATATTGGTTTGCACTAGTTCCATGAAGAAAAAAATGTTCTGTGTGTATTTCTTGGAAAATAAGACAATATTTTTCCTTTGCGGTAGCAGTTATAACACATGTGAAAATAAATATACTTTAATGTGAGTATACTAAAGAGCATGGATGCATTTCAAATGGTAGATATTTCTACTATGATTAAAGTGTTTCATATTGACCTTTTTTAAAATCATGATTCCTTCCTGTCAAGCACTAAAAAGTTGTACCATTATGTTTTATATCTGTTATGATATAAATGATGAAATTTCCCCTCAAACTCATCGCAGTGATAACTTTTTTGAGTCATTGACTTCACTTTATATTTTAAATATTATGAAATATCATCTGTCATTATATTCAAATTAAAATTGTTTTCATATAAGGCTTTGGAAAAATGGTCTTTTATAGGAAGAAAACTGGGATAATTGATTTCTATGGCTTTCAAAGCTAAAACATAATATATTAAACAAACTCTAGTATTGCTTCTTGTGTTTTACTTTCAGATTAAATTACTGCTTTTATGGATAACACTAGTGTATTCTATAACAGCTCAGTCCATGTTTAATGACTTACAGGACCTGAAGGAACAGATTTTATAGGTTAAGGACACAGAAGATGTTTCAATGATTTTGTTGGGAATAAATGTGACCTGGAGATGAGTGAGTAGTTGGCAAAGAACAGGCAGACAGTGGTATAACTGTGCCTTTTAGAACCTTTTGCTGTGTCCCACAGCACCTTCAATGGCATTTACTAGATTGTCAGTATTTAAACAGACCCTAACATGCATGAGTACAAGCTAATGGTCCTTGGTTCAGGAGGTGTTAGGAAGTCTACTCTGACAATTTAGTTTATTCAGGGAATTTTTGTTGAAAAATATGATCCAATGATAGAAGATTCCTGCCAAAAGCAAATTGAAGAAGATTGCCAATAGCGCATGCTCAAAATCTTGGATATAGCAGGGACAGAGCAACTTACAGCAATGAGGGATTTGTGTATGAAGAATAGCCAAGGGTTTGCACTAGTATATTCTCt
>NM_001010935.3
gccgccgctcccgaggcccctgccgccgccgctcccgctgctgtcgccgcGCAGAGCCGGAGCAGGAGCCACGGCCGAgaggagggaggaggaggaggaggaggtggaggaggtggaggaggtggaggaggCGCCGGACCGGGGGGgatagattcccagaagtgggataactggatcagagggtgattaccctgtgtataagagtatgtgtctcactgcaccttcaatggcattgagtagATCGTCAGTATTTAAACAGATCACATCATGCGTGAGTACAAGCTAGTGGTCCTTGGTTCAGGAGGCGTTGGGAAGTCTGCTCTGACAGTTCAGTTTGTTCAGGGAATTTTTGTTGAAAAATATGACCCAACGATAGAAGATTCCTACAGAAAGCAAGTTGAAGTCGATTGCCAACAGTGTATGCTCGAAATCCTGGATACTGCAGGGACAGAGCAATTTACAGCAATGAGGGATTTGTATATGAAGAACGGCCAAGGTTTTGCACTAGTATATTCTATTACAGCTCAGTCCACGTTTAACGACTTACAGGACCTGAGGGAACAGATTTTACGGGTTAAGGACACGGAAGATGTTCCAATGATTTTGGTTGGCAATAAATGTGACCTGGAAGATGAGCGAGTAGTTGGCAAAGAGCAGGGCCAGAATTTAGCAAGACAGTGGTGTAACTGTGCCTTTTTAGAATCTTCTGCAAAGTCAAAGATCAATGTTAATGAGATATTTTATGACCTGGTCAGACAGATAAATAGGAAAACACCAGTGGAAAAGAAGAAGCCTAAAAAGAAATCATGTCTGCTGCTCTAGGCCCATAGTCAGCAGCAGCTCTGAGCCAGATTACAGGAATGAAGAACTGTTGCCTAATTGGAAAGTGCCAGCATTCCAGACTTCAAAAATAAAAAATCTGAAGAGGCTTCTCCTGTTTTATATATTATGTGAAGAATTTAGATCTTATATTGGTTTGCACAAGTTCCCTGGAGAAAAAAATTGCTCTGTGTATATCTCTTGGAAAATAAGACAATAGTATTTCTCCTTTGCAATAGCAGTTATAACAGATGTGAAAATATACTTGACTCTAATATGATTATACAAAAGAGCATGGATGCATTTCAAATGTTAGATATTGCTACTATAATCAAATGATTTCATATTGATCTTTTTATCATGATCCTCCCTATCAAGCACTAAAAAGTTGAACCATTATACTTTATATCTGTAATGATACTGATTATGAAATGTCCCCTCAAACTCATTGCAGCAGATAACTTTTTTGAGTCATTGACTTCATTTTATATTTAAAAAATTATGGAATATCATCTGTCATTATATTCTAATTAAAATTGTGCATAATGCTTTGGAAAAATGGGTCTTTTATAGGAAAAAAACTGGGATAACTGATTTCTATGGCTTTCAAAGCTAAAATATATAATATACTAAACCAACTCTAATATTGCTTCTTGTGTTTTACTGTCAGATTAAATTACAGCTTTTATGGATGATTAAATTTTAGTACAttttcatttggtttgtgtgtttttgttattgtttATAGATTAAAGCGTTTATTTTATAATGACCACATTGTTTTAAATGCGACAGTAGCTCCTTTCTGCCTAGTATCTGCAGAACACTGGCTTTAAACTATACTAAGTAACTGGTGATTTCTCTAGGAACAGACCTCGCACTTTCTGTTCTAAATATATTTATTCCTACTATACAGTAAAATACATCAGACAACATAGAATAGTTTTGTATATTCTCTCTTGATCTTAAAGATTGTATCTTATTGAATATCCCACTGTATATTATTTTTATATGTAAAAAGATAAGTTTAATACTGTATCAGGGTTTAACTTTTACTATTTCAGATCTTCCACAGCTTGTAATTTCATCAAGGGAATCCTTTTGCATTGTTAATTTGTTGGGTGTGAGTCCACCAATGAAGTGTTATGTGAAAAATTTCAAACTTGCTTTATAATAGATTGAAGAATTTGAGAGAAGTGAGAGAAAGTTAAAACACATAAAAGGAATGTGTTACTTTTGCTTAAACTACTTATGAAATAGTATGGTAGTAGTAATATGGAAGAGATTGCTAAGTTAAAATTGTAGCTTCCTATATAGTGGTGCTTTTTCTTTTCCTTCCCAGTTATTTTCCTCTTTACAAAAGATAGGGCTTAAGTAAGACATGGACCCAGGGTGATACTACTTATGTAGTCTCTATAAAGAGAGGTAGAACAAAAAGCTTGTTAGCCAATTAAGTTCTGGAAAAGGAAAGAAACAAGCTTAGAAAACCCTGTGCCTTGTCCTCAAATATTAAGGAGGAGACAGACCAGTCCTAGAAAGTCTAAGTCATTGCTCAGGGATCTCTAGATACTGTCTCTTTGCAACTAGGTATGAAGAAGTGTTCATGCCTTGCTGAGATTTTCCAGGCATGTGGTCAGCCTGTCACTTACTAAACTGAAATTTTAAAATCAGGTTTCAAATGTTAAGCTTTGACCAACCTGAGAAAATGTTAAAGTATTGTTTTTAAAAAAATGGAAATTTTTTTTGTTTGTGTTTTTGTTTTAGTTTCGAATAAACTTAGTTACCTTACACTTCCCTTCTACTTATCCAATTATGCATATGTCTGGGATTGAGGGGCCAAAACTATAGCGAACTTGAATGAAGTATTAGGGCCAGTTGTCAGGTCAGGGTGGCATCTTTTATTTTAAGGTCCTCTAAAGTCATTCTGCTTTAAAACACCCCTCAAACATACCTTTAAACTTAAGATCATAGACAGACATCTCATCAACCAGTAAAACTTTCTAAATACTACCTTGTCACATCTATTGTGTAGTTATTTAACAGATTAAATAGAAGTCATTTAATAAGACTCCAAGTCTCAGTCTGCTTGACTAGTAGCATAAACTCAGTCTATTCTATTTTAGAATGTGGTGGAGAAAGATGATAGTTATTAGATTCCTTTGTCACATCTTATACAGTCCACTTGGGTTAAAGGTGGAACTGTCAAGAAAAACGCCTTTCTGGCACACAGTGATATGCAGAGCAGGACCAGCTGAAGTCAGATGTGCAAGGAAATCTGTGGTTGCTGAGCAGGATGAAAAGTATCCTGTTAGAAAGTGAGATAGGTGTGTTTTTATATTGTCCTAATGTGAACTCCTTAGTCTTGGTTCCAAAGGGAAGGGTACCTGAAAATAAATGTATTTTTATAGCTGAAAAATCAAGAGTTTCTAGGATATTGTGTGAATGTCAAATGATAAATATCTAGAAACTGATTTCATATTAGTATGTGTGGCTATTTAAAGTATAATGACTTTGGTTTGGTTATATGAGTGACACAGAATTTAAGGAGGCTTCATGCCATAGTTCATAGTTTGCTCTAATGGCTTGGTGGTATCCCTGAACAGTCTACTTTTAGAAATTAACAGTAAATACACAATCCAGCTGTAATCTTACCCTCCACCAGGGGGAGCTTCAACATCGGTTAATACtttttttttttttgagatggagtctcgccctgtcgcccaggctagagtgcaatggctcagtctccgctcactgcaacctctgcctcccgggttcaaacagttgtgcctcagtcttccaagtagctgggattacaggcacccgccaccacgcccagctaatttttgtatttttagtagagacggggtttcatcatgttggcgaggctggtcttgaactcctgacttcgtgatccgcccccccctcagcctcccaaagtgctgggattacaggcgtgagccaccgcgcctggccCGGTTAATACTTTCATAAGCATTGAAGTAACTATTTAAGTCCTAGTACATAAACACTGTGTGGTTCACAAAAAGGCATAGAGACATTCTCTCAAGAGTTTACAATCTAATTGGGCAGGGAAGATACTACAGTTCATCAAAGATATGAATAACACCCTAGTTTTCTGAACTGCAGCTGCATGGGTAATTATCTTAAGAACTTTTGGCAAAATATGGATGTTGGTGTGTTACTCTCTTCTCCCTACAACTCTGAACTAATCTGTGTTTGGCACCTTGATTTGCCATCATAAATGGCCACCATTTACTCCTCACTGAAATATTCTTCTTCTTTGAGGTTATAATGTACTTGGAAAAGTTAATACTTATAGAAAATAATGATCTTTATTACCAACTTTATTAAAACAGGCTTGGAACATTTTTCTCCATAGAAGAATAGTAATAAGACATTCTACATTTCCTGGACATGGCCAGTTTAAAATATTTTGCCCCATTACCCTTGTAGATACACATGTATTTGTCAGTTTATGTGCCTCAGTTTTGTCTTAGGCACTGAGGGACAGAAAGAGAAATAAGGAATACCTTGGTATTTTCCTTTGCAAGCAATCACAGCAGAATGCTAGAAAACATAAAATATACTCTTATAAATTGTATGTGTGTTGAAACCAAAGTGTGAAGAAATTGTCAGGTATTTGGAGGAGGAAAATAATTTGTAAAATAACCTTTTTAAGAATTTGGATTTTGTACTTATTTAAGGTGCTAAATATGTGTTAAAATATCCCCTCTTGAATCAGCTCCAGGCTTAAAAGGGCAGAGTGGTTTGGATTCTTGTCCAGGGTCTGGAAAGAGCTCATCTTGCCGAGAGGGAAATAAATGTGAGCTTTGAGGCGGTCTAACTACCCAGCTTTTAGTATTTATGTTCCCCAAAATGTAAAAACTGTAAGTTATTCTTGAAAATGTAGTCCAGACATTTCTTTGATCCTGGATTTTACTGCAGTTTCATCATGGGTTTGTTGAATGTGCAGTCCATTTATTGCCCTGTCTTGCTTAAATATTCTTGTTGAGAACAGCTGGAGGCTTTGACTGGGTTCCTAGTTCTGTTTTCTGGGAAGGCAACGTGGATTCTGTTTTGTAGACATTAATGAGCTTTAAATGGGAATTGGGGATGATGTATGTTCGTTGGGCATGCTGAGAAGCGGCCTCCTGTGGTTCTGGGCCCAAGGTGTGACATACATTTCCCACTAATTGCTTCTCTCAAGAAGCAAGAGATTGGCTGTTCCTCTTGAGGAAAAACCTTAATAAACCTTCCCATTTTAAA

Publications

PMID - Link Title
No publications available for this retrocopy