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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name GTF3AP5
Plot displaying the genomic locations of a retrocopy (in chr7) and its respective parental gene (in chr13). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr7:14985333-14985523  UCSC
Coordinates (T2T) chr7:15118062-15118252  UCSC
Coordinates (hg19) chr7:15024958-15025148  UCSC
Strand -
Parental Sequence NM_002097.3
Parental seq. overlap 157 bp
Parental seq. overlap (%) 10.9%
Genomic Region Intergenic
Retrocopy Summary GTF3AP5, located on chr7:14985333-14985523, is a retrocopy of the parental gene GTF3A. 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 GTF3A
Full Name general transcription factor IIIA
Also known as AP2|TFIIIA
Coordinate chr13:27424619-27435823
Strand +
Gene summary The product of this gene is a zinc finger protein with nine Cis[2]-His[2] zinc finger domains. It functions as an RNA polymerase III transcription factor to induce transcription of the 5S rRNA genes. The protein binds to a 50 bp internal promoter in the 5S genes called the internal control region (ICR), and nucleates formation of a stable preinitiation complex. This complex recruits the TFIIIC and TFIIIB transcription factors and RNA polymerase III to form the complete transcription complex. The protein is thought to be translated using a non-AUG translation initiation site in mammals based on sequence analysis, protein homology, and the size of the purified protein. [provided by RefSeq, Jul 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes GTF3AP3
Bonobo Pan paniscus GTF3AP3
Gorilla Gorilla gorilla GTF3AP3
Orangutan Pongo abelii GTF3AP3
Gibbon Nomascus leucogenys GTF3AP1
Green monkey Chlorocebus sabaeus GTF3AP3
Crab-eating macaque Macaca fascicularis GTF3AP1
Rhesus Macaca mulatta GTF3AP1
Horse Equus caballus GTF3AP1
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
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

Related Sequence

>GTF3AP5
TGTGTGAACATGCTGGCTGTGGCAAAAGGTTGGCTATGAAACAAACTCTCACAAGACATGCTATTGTGTATGAGCTTGACAGGAAGAAAATAAAGATCAAAGTAAAGCTATCTTCTGAAAAATGAAATTTGGCCTCTCATCTCAGTAAAATATCCCTCGTAAGAGGAAACAAGAACGAGGTTTATCTTTGC
>NM_002097.3
AAGTGTGCCGGCGTCGCGCGAAGGTTCAGCAGGGAGCCGTGGGCCGGGCGCGCCGGTTCCCGGCACGTGTCTCGGCACGTGGCAGCGCGCCTGGCCCTGGGCTTGGAGGCGCCGGCGCCCTGGATCCGCCGGCCGTGGTCGCCGAGTCGGTGTCGTCCTTGACCATCGCCGACGCGTTCATTGCAGCCGGCGAGAGCTCAGCTCCGACCCCGCCGCGCCCCGCGCTTCCCAGGAGGTTCATCTGCTCCTTCCCTGACTGCAGCGCCAATTACAGCAAAGCCTGGAAGCTTGACGCGCACCTGTGCAAGCACACGGGGGAGAGACCATTTGTTTGTGACTATGAAGGGTGTGGCAAGGCCTTCATCAGGGACTACCATCTGAGCCGCCACATTCTGACTCACACAGGAGAAAAGCCGTTTGTTTGTGCAGCCAATGGCTGTGATCAAAAATTCAACACAAAATCAAACTTGAAGAAACATTTTGAACGCAAACATGAAAATCAACAAAAACAATATATATGCAGTTTTGAAGACTGTAAGAAGACCTTTAAGAAACATCAGCAGCTGAAAATCCATCAGTGCCAGCATACCAATGAACCTCTATTCAAGTGTACCCAGGAAGGATGTGGGAAACACTTTGCATCACCCAGCAAGCTGAAACGACATGCCAAGGCCCACGAGGGCTATGTATGTCAAAAAGGATGTTCCTTTGTGGCAAAAACATGGACGGAACTTCTGAAACATGTGAGAGAAACCCATAAAGAGGAAATACTATGTGAAGTATGCCGGAAAACATTTAAACGCAAAGATTACCTTAAGCAACACATGAAAACTCATGCCCCAGAAAGGGATGTATGTCGCTGTCCAAGAGAAGGCTGTGGAAGAACCTATACAACTGTGTTTAATCTCCAAAGCCATATCCTCTCCTTCCATGAGGAAAGCCGCCCTTTTGTGTGTGAACATGCTGGCTGTGGCAAAACATTTGCAATGAAACAAAGTCTCACTAGGCATGCTGTTGTACATGATCCTGACAAGAAGAAAATGAAGCTCAAAGTCAAAAAATCTCGTGAAAAACGGAGTTTGGCCTCTCATCTCAGTGGATATATCCCTCCCAAAAGGAAACAAGGGCAAGGCTTATCTTTGTGTCAAAACGGAGAGTCACCCAACTGTGTGGAAGACAAGATGCTCTCGACAGTTGCAGTACTTACCCTTGGCTAAGAACTGCACTGCTTTGTTTAAAGGACTGCAGACCAAGGAGCGAGCTTTCTCTCAGAGCATGCTTTTCTTTATTAAAATTACTGATGCAGAACATTTGATTCCTTATCATTTCCATGGTCTTTGTTCAAAGTGTCTCTTTCCTGGGTCTCTTGAGTTTCTTTATATGCCTTCTCCTCATTTTTGCTGAAAGCACGAAGAACACACATTAAAGCTTTTCCTCCTTGAA

Publications

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