Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name CCT5P2
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Plot displaying the genomic locations of a retrocopy (in chr13) and its respective parental gene (in chr5). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr13:78908914-78910719  UCSC
Coordinates (T2T) chr13:78137140-78138945  UCSC
Coordinates (hg19) chr13:79483049-79484854  UCSC
Strand +
Parental Sequence NM_012073.5
Parental seq. overlap 1659 bp
Parental seq. overlap (%) 50.3%
Genomic Region Intergenic
Retrocopy Summary CCT5P2, located on chr13:78908914-78910719, is a retrocopy of the parental gene CCT5. 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 CCT5
Full Name chaperonin containing TCP1 subunit 5
Also known as CCT-epsilon|CCTE|HEL-S-69|PNAS-102|TCP-1-epsilon
Coordinate chr5:10249921-10266412
Strand +
Gene summary The protein encoded by this gene is a molecular chaperone that is a member of the chaperonin containing TCP1 complex (CCT), also known as the TCP1 ring complex (TRiC). This complex consists of two identical stacked rings, each containing eight different proteins. Unfolded polypeptides enter the central cavity of the complex and are folded in an ATP-dependent manner. The complex folds various proteins, including actin and tubulin. Mutations in this gene cause hereditary sensory and autonomic neuropathy with spastic paraplegia (HSNSP). Alternative splicing results in multiple transcript variants. Related pseudogenes have been identified on chromosomes 5 and 13. [provided by RefSeq, Apr 2015]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes CCT5P2
Bonobo Pan paniscus CCT5P2
Gorilla Gorilla gorilla CCT5P2
Orangutan Pongo abelii CCT5P2
Gibbon Nomascus leucogenys CCT5P2
Green monkey Chlorocebus sabaeus CCT5P1
Crab-eating macaque Macaca fascicularis CCT5P2
Rhesus Macaca mulatta CCT5P2
Baboon Papio anubis CCT5P2
Golden snub-nosed monkey Rhinopithecus roxellana CCT5P2
Marmoset Callithrix jacchus CCT5P1
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 Medulla00.050.10.150.2
log10(TPM+1)

Massive Mining of Publicly Available RNA-seq Data from Human and Mouse - (ARCHS4)

Related Sequence

>CCT5P2
CTGCACCACGGCGTCTATGGGGACCCTCGCCTTTGATTGATATGGGCCCCCTTTCCTTATCATCAAAGATCAGGACCGCAAGTCCCGCCTTATGGGACTTGAGGCCCTCAAGTCTCATATAATGGTGGCAAATGCTGTAGCACATGCGACAAGAACATCACTTGGACCAAAGGGGCTTCATAAGATGGTGGTGGATAAGGATGGCGATGTGACTGTAACTAATGATGGGGTCACCATCTTAAGCGTGATGGATGTCAGTCATCAGATTGCCCAGTTTGATGGTGGAAATGTCTAAGTCTCAGGATGATGAAATTGGAGATGGAACCACAGGTGTGGTTGTCCTGGCTGGTGCCTTGTTAGAAGAAGCCCAGGAGTTGCCAGACCGAAGTATTCATCCAATCAGAATAGCAGATGGCTATGAGCAGGCTGCCTGCTTTGCTGTGGAACACCTGGACAAGATCAGTGACAGCATCCTTGTTGACATAAAAGACACCAAACCCCTGATTCAGACTGCAAAAACCACGCTGGGCTCCAAAGTGGTCAACAATTGTTACCGACAAATGGCTGAGATTGCTGTGAATGCCATCCTCCCTTAACAGATATGGAGCAGAGAGGTGTTGACTTTGAGCTTATCAAAGTAGAAAGCAAAGTGGGTGGCAGCCTGGAGGACAATAAACGGATTAAGGGTGTGATTGTGGACAAGTATTTCAGTCACCCACAGATGCCAAAAAAAGTGGAAGATGCCAAGATTGTAATTCTCACATGTCCATTTGAACTACCCAAACCAAAAGCAAAGCATAAGCTGGATGTGACCTCTGTAGAAGATTATAAAGCCCTTCAGAAATATGAAAAGGAGAAATTTTAAGAGATGATTCAACAAATTAAAGAGACTGGTGCTAACCTAGAAATTTGTCAGTGGGGCTTTGATGATGAAGCAAATCACTTACTTCTTCAGAACAACTTGCCTGCGGTTTGCTAGGTAGGAGGACCTGAAATTGAACTGATTGCCATCACAACAGGAGGGCAGATCATCACCAAGTTCTCAGAGCTCATGGCCAGGAAGCTGGGCTTTGCTGGTCTTGTACAGGAGATCTCATTTTGGACAACTAAGGATAAAATGCTGGTCATCGAGCAGTGTAAGAACTCCAGAGCTATAACCATTTTTATGAGAAGAAGAAATAAGATGATTATTGAGGAGGCAAAACAATCCCTTCACGGTGCTTTGTGTGTCATCTGGAACCTCATCCGTGATAATCATGTGGTGTATGGAGGAGGGGCTGCTGAGATATCCTGTGCTCTGCCAGTTAGCCAAGAGGTGGATAAGTGCCCCACCTTAGAACAGTATGCCATGAGAGCGCTTGCCAACACGTTGGAGGTCATCCCCAAGGCCCTTTCTGAAAACGGTGGCATGAATCCTATCCAGAGTATGACCAAAGTCTGAGCCAGCCAAGTGAAGGAGATGAACCTTGCTCTTGGCATCGACTGTTTGCACAAGGGGACAAATTATATGAAGCAATAACGTGTCACAGAAACCTCGATTGGCAAAAAAGCAACAGATATCTCTTGCAACACAAATGGTTAGAATGATTTTGAAGAATGACAACATTCATAAGACTGGAGAATCTGAAGAATGAAGACAATGAGAATACTATGTAGTAAGATCCACTACTGTGATTAAATAAATGGATGTCTTGTGATGCGTCTACGGTTATTTATTACATCCTTTTTCAGACCCTGTAGATGCTATAATAAAAATTGCTGTTTGGTAACCGTAGTTTCACTTGTTCAAAGTTGTTTAATTGTGGG
>NM_012073.5
GCATTCTCGCTTCCGTAGCGGTCTCCGCCGGTTGGGGGGAAGTAATTCCGGTTGTTGCACCATGGCGTCCATGGGGACCCTCGCCTTCGATGAATATGGGCGCCCTTTCCTCATCATCAAGGATCAGGACCGCAAGTCCCGTCTTATGGGACTTGAGGCCCTCAAGTCTCATATAATGGCAGCAAAGGCTGTAGCAAATACAATGAGAACATCACTTGGACCAAATGGGCTTGATAAGATGATGGTGGATAAGGATGGAGATGTGACTGTAACTAATGATGGGGCCACCATCTTAAGCATGATGGATGTTGATCATCAGATTGCCAAGCTGATGGTGGAACTGTCCAAGTCTCAGGATGATGAAATTGGAGATGGAACCACAGGAGTGGTTGTCCTGGCTGGTGCCTTGTTAGAAGAAGCGGAGCAATTGCTAGACCGAGGCATTCACCCAATCAGAATAGCCGATGGCTATGAGCAGGCTGCTCGTGTTGCTATTGAACACCTGGACAAGATCAGCGATAGCGTCCTTGTTGACATAAAGGACACCGAACCCCTGATTCAGACAGCAAAAACCACGCTGGGCTCCAAAGTGGTCAACAGTTGTCACCGACAGATGGCTGAGATTGCTGTGAATGCCGTCCTCACTGTAGCAGATATGGAGCGGAGAGACGTTGACTTTGAGCTTATCAAAGTAGAAGGCAAAGTGGGCGGCAGGCTGGAGGACACTAAACTGATTAAGGGCGTGATTGTGGACAAGGATTTCAGTCACCCACAGATGCCAAAAAAAGTGGAAGATGCGAAGATTGCAATTCTCACATGTCCATTTGAACCACCCAAACCAAAAACAAAGCATAAGCTGGATGTGACCTCTGTCGAAGATTATAAAGCCCTTCAGAAATACGAAAAGGAGAAATTTGAAGAGATGATTCAACAAATTAAAGAGACTGGTGCTAACCTAGCAATTTGTCAGTGGGGCTTTGATGATGAAGCAAATCACTTACTTCTTCAGAACAACTTGCCTGCGGTTCGCTGGGTAGGAGGACCTGAAATTGAGCTGATTGCCATCGCAACAGGAGGGCGGATCGTCCCCAGGTTCTCAGAGCTCACAGCCGAGAAGCTGGGCTTTGCTGGTCTTGTACAGGAGATCTCATTTGGGACAACTAAGGATAAAATGCTGGTCATCGAGCAGTGTAAGAACTCCAGAGCTGTAACCATTTTTATTAGAGGAGGAAATAAGATGATCATTGAGGAGGCGAAACGATCCCTTCACGATGCTTTGTGTGTCATCCGGAACCTCATCCGCGATAATCGTGTGGTGTATGGAGGAGGGGCTGCTGAGATATCCTGTGCCCTGGCAGTTAGCCAAGAGGCGGATAAGTGCCCCACCTTAGAACAGTATGCCATGAGAGCGTTTGCCGACGCACTGGAGGTCATCCCCATGGCCCTCTCTGAAAACAGTGGCATGAATCCCATCCAGACTATGACCGAAGTCCGAGCCAGACAGGTGAAGGAGATGAACCCTGCTCTTGGCATCGACTGTTTGCACAAGGGGACAAATGATATGAAGCAACAGCATGTCATAGAAACCTTGATTGGCAAAAAGCAACAGATATCTCTTGCAACACAAATGGTTAGAATGATTttgaagattgatgacattcgtaagcctggagaatctgaagaatgaagacattgaGAAAACTATGTAGCAAGATCCACTTCTGTGATTAAGTAAATGGATGTCTCGTGATGCATCTACAGTTATTTATTGTTACATCCTTTTCCAGACACTGTAGATGCTATAATAAAAATAGCTGTTTGGTAACCATAGTTTCACTTGTTCAAAGCTGTGTAATCGTGGGGGTACCATCTCAACTGCTTTTGTATTCATTGTATTAAAAGAATCTGTTTAAACAACCTTTATCTTCTCTTCGGGTTTAAGAAACGTTTATTGTAACAGTAATTAAATGCTGCCTTAATTGAAGGGGTTTGGGTGGATTTTTTTTTCTCAAAATAAGCTGTAGGGACTATTTTAACAGCTTAAACAGGAGCTCTCAAGATGCACTTTCATATTGAGAGGAATATGGGCTTGATCCTCTTCCTATCTAAATGGGTGGGCCATTTGATTGTAGAGGGTCCACCACAGAATTATGGGATGCCTTAAGTGCTGTTACTAGGTTGCTCACAGCCTAACCTGGCGTGTTGTTTAGGGCTGATGGAGACCCATGTGAGCCTTTGCTTTCCTCTGGCCCCGGCCCCACCCTGAACACAGCTCATACACAGAATCAGGACCAGCATGTGCAGAGCTGGCCACCAGCACAGGCTTAGGGCAGTTCAGAACCCACTTGTTTCCCTATCAGAGGGACACAGTGAAGTGGAGGTTAAAGTAAATTACAGGAAATAAGGGAGAAATCTTGCAGTTACCATGTTCAGATAGAGTGACTGAAATTAATTGTACTTACTAAAGTATTAACTAGCTAACAGTGATGGGCCAAGACGCTCCGAGAACTCTACCGGGATTGTCTGTTCTGacaacccagtgaggcagatacactttcttactgctcacatcttacaggtgagtactcataattggccagcatctcaccaccagcaagtagtagggccaggtcaatcccaggcagtctgaccccagagtggcccagctcatcccctactctgttatTTGCTTGTTAATGATTCTCTAGATTTTCTAAAATAATGTTTCTTAGCATTGTGATGATAAAGCTCATGATGAACTTTATCACTAGTTATGCCACCTTAACTAGTCAGATTTCCTAGAATTAGGAAATGGTGACTCTTGTCTAAATTTGGTTAAGTGATGAATTTGGGTTACCGTCTCATGTGAACCTGGAGATTCACCAGTCTTAACTTTTGGGTCATTGTGTTTTCTCTACATTCATGCATTGGATGTTTTGCTAAATAACTCCTGTGGATTTAGGAATGTGTGCTAATAGCAATCTTCCTAATTTTCATGTTTATATGGAACTATGCAGTTGAGTATTGAAAGCTTTAAACTGAGTTTATTTACAAGGACTGAGTCTAGCCTACAGAGAACATACAGCAGCCTTCTTTGGACCACAGTCTTATCCGAGGGGTCTGTGGTTGTATCAGAAGAGCCACTAAACCAATCCCCCTTTCCAAAATTGAACCTCACAGACGTTCCTGTTTTTTGTGATTGAGAAACTGGTCAATGAACAGGAAGACTTAGAGATGTTTCACAAGCCTTTGATTTTTGTTTCATTTATTTGTAATAAACCTCTTCCACGTGA

Publications

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