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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name RPEP5
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Plot displaying the genomic locations of a retrocopy (in chr2) and its respective parental gene (in chr2). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr2:161931201-161931347  UCSC
Coordinates (T2T) chr2:162387798-162387944  UCSC
Coordinates (hg19) chr2:162787711-162787857  UCSC
Strand -
Parental Sequence NM_001278285.2
Parental seq. overlap 123 bp
Parental seq. overlap (%) 4%
Genomic Region Intragenic (SLC4A10)
Retrocopy Summary RPEP5, located on chr2:161931201-161931347, is a retrocopy of the parental gene RPE. 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 RPE
Full Name ribulose-5-phosphate-3-epimerase
Also known as RPE2-1
Coordinate chr2:210002638-210023363
Strand +
Gene summary Enables metal ion binding activity; protein homodimerization activity; and ribulose-phosphate 3-epimerase activity. Involved in carbohydrate metabolic process and pentose-phosphate shunt. Located in extracellular exosome. [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Horse Equus caballus RPEP2
Dog Canis familiaris RPEP2
Panda Ailuropoda melanoleuca RPEP1
Velvety free-tailed bat Molossus molossus RPEP2
Greater horseshoe bat Rhinolophus ferrumequinum RPEP1
Egyptian rousette Rousettus aegyptiacus RPEP1
Chimpanzee Pan troglodytes Without Homology
Bonobo Pan paniscus Without Homology
Gorilla Gorilla gorilla Without Homology
Orangutan Pongo abelii Without Homology
Gibbon Nomascus leucogenys Without Homology
Green monkey Chlorocebus sabaeus Without Homology
Crab-eating macaque Macaca fascicularis Without Homology
Rhesus Macaca mulatta Without Homology
Baboon Papio anubis Without Homology
Golden snub-nosed monkey Rhinopithecus roxellana Without Homology
Marmoset Callithrix jacchus 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
Cat Felis catus Without Homology
Pale spear-nosed bat Phyllostomus discolor Without Homology
Greater mouse-eared bat Myotis myotis Without Homology
Kuhl's pipistrelle Pipistrellus kuhlii 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

>RPEP5
ATTTTGTTCCGAACATCACCTTTGCTCATTCTGTGGTAGAAAGTCCCCAAAAGAAGCTAGGCCAGAGTCCTGTCTTTGACATGCACTGGATGATGTCCAGGCCAGAAGAGTGGCTGAAGCCAATGGCTGTGGCAACAGCCAATCAGC
>NM_001278285.2
AACTTGCTTTTGGGAGCCAGCGGTATGGCGTCGGGCTGCAAGATTGGCCCGTCCATCCTCAACAGCGACCTGGCCAATTTAGGGGCCGAGTGCCTCCGGATGCTAGACTCTGGGGCCGATTATCTGCACCTGGACGTAATGGACGGGCATTTTGTTCCCAACATCACCTTTGGTCACCCTGTGGTAGAAAGCCTTCGAAAGCAGCTAGGCCAGGACCCTTTCTTTGACATGCACATGATGGTGTCCAAGCCAGAACAGTGGGTAAAGCCAATGGCTGTAGCAGGAGCCAATCAGTACACCTTTCATCTCGAGGCTACTGAGAACCCAGGGGCTTTGATTAAAGACATTCGGGAGAATGGGATGAAGGTTGGCCTTGCCATCAAACCAGGAACCTCAGTTGAGTATTTGGCACCATGGGCTAATCAGATAGATATGGCCTTGGTTATGACAGTGGAACCGGGGTTTGGAGGGCAGAAATTCATGGAAGATATGATGCCAAAGGCAGGAGCTAACATGATTGTGTCTGGCAGTGCTATTATGAGGAGTGAAGACCCCAGATCTGTGATCAATCTATTAAGAAATGTTTGCTCAGAAGCTGCTCAGAAACGTTCTCTTGATCGGTGAAACCATAAGGAGCCCAGTGTTCCTGTTCATGAAATCTCCCTTTTACTGGAAAACAGGAATATTGACTACCAAATCACAATGCAATTGAAGCCGTACTGCTTTTTTGAGCAGTTATTCATTCCAGTGATTAAAACTGATTGTGCAGAATATTCTAAGAGGTCAGAAATTGGTGTGTATAACTACATTTTTAGTGATGCAATTTATTGATTAGTGAGTAAGATACTGTTTTTATTGAGAGATTTGATTTTTATAAAGTAAAAATACGGCTGCATTAGGGTTACAAACAGAAAAGTGTCTTAATGTCTAAGGAGGGCATATTAGCTACACTACAAAAACAAATTTTGTCTGTACTTCTGAAAAGAATTTTGTTGTTTCTCAGCTGTTTTCCAAAAGCAAAGGAAGTCTTTATGGTTTTTTTCTATTTCATGTTATTGTGATTTGTTTATAAGTTTGGGTGGGGTGCATACCATATTCTTGGTTCTTAAAATCTATCACTTTTCACCTTACACTTGATGTGTGAAAACTATAAAAACAATGTGTGAAACCCAGGGGTTCTAAAATACAAGCATAGATTTTATCAGGGTGTTTTGTCAAAGCAGGTTATTCAGTGATTCCTCCCCACCATTCTTAAGAACGTTAAATAATGCTGTTGTGTTAGCTCTGAGTAGAAAggaaaaagtaaaacctctgtttggaggtaatattgggttgaattctgactgcccctttctagctggacctttaacaaatcacccaatcttttttgtgtttctctaaagtcatttatacattaaatgtaattatagcaactgtggggttctgttgagaattaagagctaacactatatatgtaaagtttccagtactagtcccagaatttagaatatgctcaacacaaagtaAACAGCATTATATAAGTTTATATTTTTGTGAGttataaagtactttgatatattctcattaaatctgtaaatcacctctataagtaagtggtaataataaagcagatatttttgtccccatttaaaaaatgaagaaattaatgcttaatagggtggtaccctggaaaggatctgggaagtggtagaATTTCTGGTCTGTACTTTTACAAATGGAGCCCTTGGGAGGTGGGTTAGGTAAAAGAAGCTTTTTACTTAACGTTGTCTTATTTCCAGTCTAATTTTACGCTGTAGCAGAACCAGATGGCTGAGAAAATTCTGGAACTATGGATCTTGACCCCAAGGATATATTATTTTATTCCAAGAAAGATCAGGTAGGCGAAAAGATGACAGGATACAGAGTCAATCCATAAACTAAATATTTATAACTGTTCTGAATTATACAGAGTCTAAAAATATGTGTCAGCTACTTCATTCCTGTAAATACTCTTGCTGTGTTATAAATATGGCAAGAAATAAACATGACCAATATCAATAGACTTCTTGAGGCTACTATAAGTTTTGAGAAATAAGGTTCAAAAAATAAGAATGCTAACACTTAAGCACAGACTAGAGCTTGCTTGGGTTTCTTCCTGCATTACAAGGTAAAAATTTGTTAATGTTTGTTTTTATTCAGCTTGGGAAAGCTTTGTGCCATGAATACGTCGCATTTAATAACAAGCAACACACGGCATATAGAAATAACTTTAATTAAAAAACTTACATAGAAGATTATAATATCAGACGTGACAAAGATTTGAGTTTATTTGCCTGGACAACTTGGGTTTGTCTGGCTTTTGTTTTCTTTTTCTTTAAAAATAAATGTACAGTAAAACTACAAGCAAAAGTTTGTCAGTATTGAATTGAATTTTTTACCCCTTAAAAGGACTAGTATAATTTCCAATCTCTAACAAAAACTTAGTGTCAAATCTCACAGATAAGGCCAAATGGCCAATATTTTCAGTTATGTGGGTAGTACAACTTGAGTAACCTTTTTTACATGACAAAAAGTGAGTTATATAAATTGTCCTCAACTTTCACATAGGAAAAAAATGGTTTAATAGCTTCAAAAGGAATTTTCTTTCATGTATACTCTTCAGTATCCAATATTGAAGCTTTGTTCTTTGAAAAATTTTAATTTCCAATCTAGGATGCAAGCAAGAATATATGTTTATTTGAATAGAGTAAGCTATGGCAAAGAATGACCAAATTAGCTAGAAATAGAAATCAGCCAGAATTAACTAATTTCTTGCTAATCTAGAAATACAATCATCTTTTTTTTTTTTTTCAAATTTTATACTGATAGGGCTTTACTGTTTGTGGCTCATTTTAAAACTGGTGTCTTCTCTTCATGAGACACATTAATTGGTAAAACTCAAATTGAGTTTTCAAAGATGTGATAGTATTAAAGTGCACCAATATTTGACTCAAATTTGCTTGCTTTATTTTGTTAGGAGTAAACAGAAAGTAGCCTGTGTTTAGTCCCAAAGATAGCAGTGATTTTGAATAAAGGAGTTTTGTGTTGCCTGGA

Publications

PMID - Link Title
No publications available for this retrocopy