Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name PSIP1P1
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Plot displaying the genomic locations of a retrocopy (in chr9) and its respective parental gene (in chr9). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr9:15054983-15056607  UCSC
Coordinates (T2T) chr9:15064793-15066417  UCSC
Coordinates (hg19) chr9:15054981-15056605  UCSC
Strand +
Parental Sequence XM_024447400.1
Parental seq. overlap 1502 bp
Parental seq. overlap (%) 78.9%
Genomic Region Intergenic
Retrocopy Summary PSIP1P1, located on chr9:15054983-15056607, is a retrocopy of the parental gene PSIP1. 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 PSIP1
Full Name PC4 and SRSF1 interacting protein 1
Also known as DFS70|LEDGF|PAIP|PSIP2|p52|p75
Coordinate chr9:15464066-15511004
Strand -
Gene summary Enables DNA-binding transcription factor binding activity; chromatin binding activity; and transcription coactivator activity. Involved in mRNA 5'-splice site recognition and positive regulation of transcription by RNA polymerase II. Located in heterochromatin; nuclear periphery; and nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes PSIP1P2
Bonobo Pan paniscus LOC100979736P2
Orangutan Pongo abelii PSIP1P2
Gibbon Nomascus leucogenys PSIP1P1
Gorilla Gorilla gorilla 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
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 Medulla00.20.4
log10(TPM+1)

Related Sequence

>PSIP1P1
TGCCCTCATCCCCGCACCGCCGCATCTCCTCGCTGCCTCCCGGGCTTCGGACCCCCGGTCTCACCCCCTGAAACACGACTCGCGATTTCAAACCTGGAGACCTCATCTTCGCCAAGATGAAAGGTTATCCCCACTGGCCAGCTGGAGTAGATGAAGTTCTTGATGGAGCTGTAAAGCCACCCACAAACAAACTACCCATTTTCTTTTTTTGGAACTCATGAGACTGCTTTTTTAGGACCAAAGGTTATATTTCCTTACTCCGAAAATAAGGAAAAGTATGGCGAACCAAACAAAAGATTTTAACGAAGGTTTATGGGGACAGATAACAATCCAAAAGTGAAATTTTCAAGTCAACAGGCAGCAACTAAACAATCAAACACATCATCCAATGTTGAAGTTGAAGAAAAAGAAACTAGTGTTTCAAAGGAAGATACCGACCATGAAGAAAAAGCCAGCAATGAGGGTGTGACTAAAGCAGTTGACATAACTACTCCAAAAGCTGCCAGAAGAGGGAGAAAGAGAAAGGCAGAAAAACAAGTAGAAACTGAGGAGGCAGGAGTAGTGACAACAGCAACAGCATCTGTTCATCTAAAAGTGAGTCCTAAAAGAGGACGACCTGCAGCTACGGAAGTCAAGATTCCAAAACCAAGAGGCAGACCCAAAATGGTAAAACAGCCCTGTCCTTCAGAGAGTGACATCATTACTGAAGAGGACAAAAGTAAGAAAAAGGGGCAAGAGGAAAAACAACCTAAAAAGCAGCCTAAGAAGGACAAAGAGGGCCAGAAGGAAGAAGATAAGCCAAGAAAAGAGCCAGACAAAATAGAGTAGAAGAAAGAAGTTGAGTCAAAAGGAAAAATTTAGCTAACACAGGGGTTACATCAACCTCCGATTCTGTGACAGGAACGTTCAGACTGCTCACAGAAGGAATATGCTGAAAGGCCAAAATGAGAAAGAAGCAGCAGATCGAAAACGCAAGCAGGAAAAACAAGTGGAAACTGAGCACCAAACAAGATGTAATCTACAGTAATAAAAAATATCTCATTTTGGGCTCAAAGCATTAATCCAGTTACTGAAAAGAGAATACAAGTGGAGCAAACAAGAGATGAAGATCTTGAGACAGACTCATTGGACTGAATTTCCCCCTTCCCCCCATTGATGGAAGAATGTTCCAGATTCTAAATGGAGGACTTCATTATTAATGGCATTACTGTGTTATGATTAACAAATTTCCTGTAAGGTACACACTACATACTAAGGTCGGCCATCATTCTTGTTTTTTTTTTTTTTAACCAAGCTTAAAATGAAGCTTTGTGTTTGAAAGTAATAACAAGCTCAGACGAAGATGGTGGTTGTACATTATTCATTTAGAAAATATAAAAGTTCATTTTGTTTTGAAGCTAGTTATTAAACTGGAATAGCAGTTATACCCCTAAGAATGGGGCCCTTCTCTTGACATTCTTTTGTTGTTTAATTCTTTAGAATCTTAATAAATGTTTTTTTAATCCTGAGAAATTAAACGGTAGTAGACTTGTTAAGAATGAAACTGTAACCAAAATTT
>XM_024447400.1
AGTGCTAGCGggcgccgagcgggagccgcgcgggagcagcgcagctacggcggcggcagcggcggcgcggTTGCGATTCCGAGCCGTTGAGACGCCTCTGCGGCAGCTGGTGGCGCAGGTGGCTTGCGTGGACGCGGGTAGAGGCGACCGGCCAGCAACCGCAGCGTCGGCGCCCGCGGCCCCGGCAGCAGGCGCGTCGGGACGCCCCGAGGCATCCTCCCCCGCCCGCGGGCCCGGTAGCTGGGCCCGCGTCCGCCGCCCGCATCCCCGCGCCGCCGCATCTCCTCGCCGCCTCCCGGGCTTCGGACCCCCGGTCTCGCCCCCGAAACATGACTCGCGATTTCAAACCTGGAGACCTCATCTTCGCCAAGATGAAAGGTTATCCCCATTGGCCAGCTCGAGTAGACGAAGTTCCTGATGGAGCTGTAAAGCCACCCACAAACAAACTACCCATTTTCTTTTTTGGAACTCATGAGACTGCTTTTTTAGGACCAAAGGATATATTTCCTTACTCAGAAAATAAGGAAAAGTATGGCAAACCAAATAAAAGAAAAGGTTTTAATGAAGGTTTATGGGAGATAGATAACAATCCAAAAGTGAAATTTTCAAGTCAACAGGCAGCAACTAAACAATCAAATGCATCATCTGATGTTGAAGTTGAAGAAAAGGAAACTAGTGTTTCAAAGGAAGATACCGACCATGAAGAAAAAGCCAGCAATGAGGATGTGACTAAAGCAGTTGACATAACTACTCCAAAAGCTGCCAGAAGGGGGAGAAAGAGAAAGGCAGAAAAACAAGTAGAAACTGAGGAGGCAGGAGTAGTGACAACAGCAACAGCATCTGTTAATCTAAAAGTGAGTCCTAAAAGAGGACGACCTGCAGCTACAGAAGTCAAGATTCCAAAACCAAGAGGCAGACCCAAAATGGTAAAACAGCCCTGTCCTTCAGAGAGTGACATCATTACTGAAGAGGACAAAAGTAAGAAAAAGGGGCAAGAGGAAAAACAACCTAAAAAGCAGCCTAAGAAGGATGAAGAGGGCCAGAAGGAAGAAGATAAGCCAAGAAAAGAGCCGGATAAAAAAGAGGGGAAGAAAGAAGTTGAATCAAAAAGGAAAAATTTAGCTAAAACAGGGGTTACTTCAACCTCCGATTCTGAAGAAGAAGGAGATGATCAAGAAGGTGAAAAGAAGAGAAAAGGTGGGAGGAACTTTCAGACTGCTCACAGAAGGAATATGCTGAAAGGCCAACATGAGAAAGAAGCAGCAGATCGAAAACGCAAGCAAGAGGAACAAATGGAAACTGAGCACCAAACAACATGTAATCTACAGTAATAAAAAATATATCTCATTTTGGGCTCAAAGCATTAATCCAGTTACTGAAAAGAGAATACAAGTGGAGCAAACAAGAGATGAAGATCTTGATACAGACTCATTGGACTGAATTTCCCCCTTCCCCCCATTGATGGAAGAATGTTCCAGATTCTAAATTGAGGACTTCATTATTAATGGCATTACTGTGTTATGATTAACAAATTTCCTGTAAGGTACACACTACATACTAAGGTCGGCCATCATTCCTGttttttttttttttttttttttttAACCAAGCTTAAAATGAAGCTTTGTGTTTGAAAGTAATAACAAGCTCAGACGAAGATGGTGGTTGTACATTATTCATCTAGAAAATATAAAAATTCATTTTGTTTTGAAGCTAGTTATTAAACTGGAATAGCAGTTATATCCCTGAGAATGGGGCCCTTCTCTTGACATTCCTTTGTTGTTTAATTCTTTAGAATCTTAATAAATGTTTTTTTAATCCTGAGAGATTAAACAGTAGTAGACTTGTTAAGAATGAAACTGTAACCAAAATTTTAAAATAAAGTTTTTTTTAAAAAAAAAA

Publications

PMID - Link Title
No publications available for this retrocopy