Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name CSDE1P1
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Plot displaying the genomic locations of a retrocopy (in chr5) and its respective parental gene (in chr1). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr5:179082483-179083091  UCSC
Coordinates (T2T) chr5:179635673-179636281  UCSC
Coordinates (hg19) chr5:178509484-178510092  UCSC
Strand -
Parental Sequence NM_001242892.2
Parental seq. overlap 584 bp
Parental seq. overlap (%) 15.7%
Genomic Region Intragenic (ZNF354C)
Retrocopy Summary CSDE1P1, located on chr5:179082483-179083091, is a retrocopy of the parental gene CSDE1. 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 CSDE1
Full Name cold shock domain containing E1
Also known as D1S155E|UNR
Coordinate chr1:114716916-114757984
Strand -
Gene summary Enables RNA stem-loop binding activity. Involved in IRES-dependent viral translational initiation; nuclear-transcribed mRNA catabolic process, no-go decay; and stress granule assembly. Located in Golgi apparatus; cytosol; and plasma membrane. Part of CRD-mediated mRNA stability complex. [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes CSDE1P1
Bonobo Pan paniscus CSDE1P1
Gorilla Gorilla gorilla CSDE1P1
Orangutan Pongo abelii CSDE1P1
Gibbon Nomascus leucogenys CSDE1P1
Green monkey Chlorocebus sabaeus CSDE1P2
Crab-eating macaque Macaca fascicularis CSDE1P1
Rhesus Macaca mulatta CSDE1P1
Baboon Papio anubis CSDE1P1
Golden snub-nosed monkey Rhinopithecus roxellana CSDE1P2
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

This retrocopy transcript is not present in the GTEx database for expression quantification.

Related Sequence

>CSDE1P1
GGCCAAAATGCACAAACTATGGCTTACAACATCACACCCCTGCGTAGGGCCAGTGGAATGTGTGCAAGATCAGTTTGGCTTCATTAACTATGAAGTAGGGGATAGCAAGAAGCTCTTTTTCCATATGAAAGAAGTTGAGGATGGCCTTGAGCTCCAGGCAGGAGATGAGGTGGAGTTCTCCGTGATTCTTCATCAGCGCACTGGCAAGTGCAGTGCCTGGAATGTTTGGCGAGTCTGTGAGGGCCCCAAGGCTGTTGCAGCTCCTCGACCTGATCGGTTGGTCAGTCGCTTGAAGAACATCACCCTGGATGATGCCAGTGATCCTCGCCTAATGGCTCTTCGTCAGCCAAGGGGACCAGATAACTCAATGGGGTTTGGTGCAGAAAGAAAGATCCGTCAAGCTGGTGTCATTGACTAACCACATCCACAAAGCACGTCATTAATCCACTATGATCAAGTTGGGAGGAATCTGGTGAAGGTTTCTGAATATCTCCCTCTTCATCCCTCCCGAAATCTGGAATACTTAGTTCTTTTGAGCTATTACACCAGTTTTAACAGCTTCCTCGTGTTATGTTTAAAAAAATAAATTTAAGAAAACCATTTTAAAA
>NM_001242892.2
CCTACGTACCGGGCCGTGCTGCTTATGGCGGCGCTGGAGAGGGGGCGCTGAGCTGTTGGGATGAGCTTTGATCCAAACCTTCTCCACAACAATGGACATAATGGGTACCCTAATGGTACTTCAGCAGCACTGCGTGAAACTGGGGTTATTGAAAAACTGTTAACCTCTTACGGATTTATTCAGTGTTCAGAACGTCAAGCTAGACTTTTCTTCCACTGTTCACAGTATAATGGCAACCTGCAAGACTTAAAAGTAGGAGATGATGTTGAATTTGAAGTATCATCGGACCGACGGACTGGGAAACCCATTGCTGTTAAACTGGTGAAGATAAAACAAGAAATCCTCCCTGAAGAACGAATGAATGGACAAGTTGTGTGCGCTGTTCCTCACAACTTAGAGAGTAAATCTCCAGCTGCCCCGGGTCAGAGTCCAACAGGGAGTGTATGCTACGAACGTAATGGGGAAGTGTTTTATCTGACTTACACCCCTGAAGATGTCGAAGGGAACGTTCAGCTGGAAACTGGAGATAAAATAAACTTTGTAATTGATAACAATAAACATACTGGTGCTGTAAGTGCTCGCAACATTATGCTGTTGAAAAAGAAACAAGCCCGCTGTCAGGGAGTAGTTTGTGCCATGAAGGAGGCATTTGGCTTTATTGAAAGAGGTGATGTTGTAAAAGAGATATTCTTTCACTATAGTGAATTTAAGGGTGACTTAGAAACCTTACAGCCTGGCGATGATGTGGAATTCACAATCAAGGACAGAAATGGTAAAGAAGTTGCAACAGATGTCAGACTATTGCCTCAAGGAACAGTCATTTTTGAAGATATCAGCATTGAACATTTTGAAGGAACTGTAACCAAAGTTATCCCAAAAGTACCCAGTAAAAACCAGAATGACCCATTGCCAGGACGCATCAAAGTTGACTTTGTGATCCCTAAAGAACTTCCCTTTGGAGACAAAGATACGAAATCCAAGGTGACCCTGCTGGAAGGTGACCATGTTAGGTTTAATATTTCAACAGACCGACGTGACAAATTAGAGCGAGCAACCAATATAGAAGTTCTGTCAAATACATTTCAGTTCACTAATGAAGCCCGAGAAATGGGTGTGATTGCTGCCATGAGAGATGGTTTTGGTTTCATCAAGTGTGTGGATCGTGATGTTCGTATGTTCTTCCACTTCAGTGAAATTCTGGATGGGAACCAGCTCCATATTGCAGATGAAGTAGAGTTTACTGTGGTTCCTGATATGCTCTCTGCTCAAAGAAATCATGCTATTAGGATTAAAAAACTTCCCAAGGGCACGGTTTCATTTCATTCCCATTCAGATCACCGTTTTCTGGGCACGGTAGAAAAAGAAGCCACTTTTTCCAATCCTAAAACCACTAGCCCAAATAAAGGCAAAGAGAAGGAGGCTGAGGATGGCATTATTGCTTATGATGACTGTGGGGTGAAACTGACTATTGCTTTTCAAGCCAAGGATGTGGAAGGATCTACTTCTCCTCAAATAGGAGATAAGGTTGAATTTAGTATTAGTGACAAACAGAGGCCTGGACAGCAGGTTGCAACTTGTGTGCGACTTTTAGGTCGTAATTCTAACTCCAAGAGGCTCTTGGGTTATGTGGCAACTCTGAAGGATAATTTTGGATTTATTGAAACAGCCAATCATGATAAGGAAATCTTTTTCCATTACAGTGAGTTCTCTGGTGATGTTGATAGCCTGGAACTGGGGGACATGGTCGAGTATAGCTTGTCCAAAGGCAAAGGCAACAAAGTCAGTGCAGAAAAAGTGAACAAAACACACTCAGTGAATGGCATTACTGAGGAAGCTGATCCCACCATTTACTCTGGCAAAGTAATTCGCCCCCTGAGGAGTGTTGATCCAACACAGACTGAGTACCAAGGAATGATTGAGATTGTGGAGGAGGGCGATATGAAAGGTGAGGTCTATCCATTTGGCATCGTTGGGATGGCCAACAAAGGGGATTGCCTGCAGAAAGGGGAGAGCGTCAAGTTCCAATTGTGTGTCCTGGGCCAAAATGCACAAACTATGGCTTACAACATCACACCCCTGCGCAGGGCCACAGTGGAATGTGTGAAAGATCAGTTTGGCTTCATTAACTATGAAGTAGGAGATAGCAAGAAGCTCTTTTTCCATGTGAAAGAAGTTCAGGATGGCATTGAGCTACAGGCAGGAGATGAGGTGGAGTTCTCAGTGATTCTTAATCAGCGCACTGGCAAGTGCAGCGCCTGTAATGTTTGGCGAGTCTGTGAGGGCCCCAAGGCTGTTGCAGCTCCTCGACCTGATCGGTTGGTCAATCGCTTGAAGAATATCACTCTGGATGATGCCAGTGCTCCTCGCCTAATGGTTCTTCGTCAGCCAAGGGGACCAGATAACTCAATGGGGTTTGGTGCAGAAAGAAAGATCCGTCAAGCTGGTGTCATTGACTAACCACATCCACAAAGCACACCATTAATCCACTATGATCAAGTTGGGGGGAATCTGGTGAAGGGTTCTGAATATCTCCCTCTTCATCCCTCCCGAAATCTGGAATACTTATTCTATTGAGCTATTACACCAGTTTTAACACCTTCCTCGTGTTATGTTTAAAAAAATAAATAAATTTAAGAAAACCATTTTAAATAATGCACAGTTGCAGCCTGGAAAAACTTAAGGTGGCGCCTTATAGTATCAATTTTAGGAGCTTTATTTGGTGCATTTAACGCAACTGGTAATTGCAGAATCCACTTTGCCTGTGTAAGTGAAAAATATAGACTGTTATCTTGTTGGCCCTATGAAATTCTGCACTTTTCATTATATACTCTACCTTCATTAATTACTTCTGGCAAGATGTTCTGCCTTAGCACTCAGTTGCATTCTTTTCCTTTTTCTTCCTGTTCATTATGCTTTAATTCTGAGGACCATATGAGGGTAGAATATATTATCTTTTAAAAATTACAAAAATTTGTATAGGCAAACCATTTCTTAAAGTTGATGGCCAAATTTTAAAATGTTATTTTTCATATCATTTATAATCTTGTCACAATCCACTTAAAGAAGTTTGGTTATATTTCAGTGAAAATTTTCTTCCAGAGTAGGTTTTTTTTCGTGGGTTGGGGGGTAACTTTACTACAATTAGTAAGTATGGTGCAGAATTTCATGCAAATGAGGAGTGCCAGCAGTGTGATAATTTAAACATATTTAAACAAAAACAAAAAAAATGAATGCACAAACTTGCTGCTGCTTAGATCACTGCAGCTTCTAGGACCCGGTTTCTTTTACTGATTTaaaaacaaaacaaaaaaaaataaaaaaGTTGTGCCTGAAATGAATCTTGTTTTTTTTTATAAGTAGCCGCCTGGTTACTGTGTCCTGTAAAATACAGACACTTGACCCTTGGTGTAGCTTCTGTTCAACTTTATATCACGGGAATGGATGGGTCTGATTTCTTGGCCCTCTTCTTGAATTGGCCATATACAGGGTCCCTGGCCAGTGGACTGAAGGCTTTGTCTAAGATGACAAGGGTCAGCTCAGGGGATGTGGGGGAGGGCGGTTTTATCTTCCCCCTTGTCGTTTGAGGTTTTGATCTCTGGGTAAAGAGGCCGTTTATCTTTGTAAACACGAAACATTTTTGCTTTCTCCAGTTTTCTGTTAATGGCGAAAGAATGGAAGCGAATAAAGTTTTACTGATTTTTGAGACACTA

Publications

PMID - Link Title
No publications available for this retrocopy