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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name Dnaja3P1
Plot displaying the genomic locations of a retrocopy (in chr14) and its respective parental gene (in chr10). Each line represents a retrocopy.
Species Rattus norvegicus
Coordinates chr14:55433362-55433655  UCSC
Strand -
Parental Sequence NM_001038596.1
Parental seq. overlap 243 bp
Parental seq. overlap (%) 14.3%
Genomic Region Intergenic
Retrocopy Summary Dnaja3P1, located on chr14:55433362-55433655, is a retrocopy of the parental gene Dnaja3. 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 Dnaja3
Full Name DnaJ heat shock protein family (Hsp40) member A3
Also known as Tid-1
Coordinate chr10:11059701-11085186
Strand -
Gene summary Enables Hsp70 protein binding activity. Predicted to be involved in several processes, including negative regulation of signal transduction; regulation of cellular protein metabolic process; and regulation of transcription, DNA-templated. Predicted to act upstream of or within several processes, including activation-induced cell death of T cells; mitochondrial DNA replication; and positive regulation of T cell proliferation. Predicted to be located in several cellular components, including mitochondrial nucleoid; neuromuscular junction; and postsynaptic membrane. Predicted to be extrinsic component of plasma membrane. Predicted to be active in mitochondrion. Predicted to colocalize with actin filament. Orthologous to human DNAJA3 (DnaJ heat shock protein family (Hsp40) member A3). [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Mouse Mus musculus Dnaja3P1
Human Homo sapiens Without Homology
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
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

Related Sequence

>Dnaja3P1
CTCAAGCTATTCTTGTGGGCACAGCCAAAGGCCAGGGATCTTGTGAGATATCAATGTGACAATCCTTGCTGGGATTCAGACACACTAGAGAATTCGCTTGACTTGTGAAAGACATGCCCCCAAATTAACAGCTGTGGCTACAGGGGCCACTATATTCATACGAAGATCATGGTTCCAAAGAGGCTAATTCGTAGTCAGCAGAACCTGATCCTGAAGTATGTTGAAGATGAGATTGACGAGGAAACAGTGAATCGTGACACCCACACAAGCACTGGAAAACGGTAAACCGGAAAT
>NM_001038596.1
ATGGCTGCGCGGTGTTCCCCACGCTGGTTTAGGGTGGCGGTGGGGACCCCCCGGCTGCCGGCTGCAGCGGGGAGAGGGGTCCAGCAGCCCCAGGGGGGCGTAGTGGCAGCATCCCTGTGTCGCAAGCTGTGTGTCTCTGCCTTCGGGCTTTCCATGGGCGCTCACGGCCCCCGGGCGCTGCTGACATTGAGACCCGGTGTCCGCCTCACAGGAACAAAAAGTTTCCCTTTTGTTTGTACTGCTTCCTTCCACACAAGTGCTTCTTTGGCCAAAGATGATTATTACCAGATACTGGGAGTACCCCGAAATGCCAGCCAGAAGGATATCAAGAAAGCCTATTATCAGCTTGCCAAGAAATATCATCCAGACACAAATAAGGATGATCCCAAAGCCAAGGAGAAGTTTTCCCAGCTGGCAGAAGCTTATGAGGTGTTGAGTGACGAGGTGAAGAGGAAGCAGTATGATGCTTACGGCTCCGCTGGCTTTGACCCTGGAGCCAGCAGCTCTGGGCAGGGCTACTGGAGAGGAGGTCCTTCTGTTGACCCCGAGGAGCTATTCAGGAAGATCTTTGGAGAGTTCTCATCTTCTCCTTTTGGTGATTTCCAGAATGTGTTTGATCAGCCTCAGGAGTACATCATGGAGTTGACATTCAATCAAGCCGCCAAGGGTGTCAACAAAGAGTTCACCGTGAACATCATGGACACCTGTGAGCGCTGCGATGGCAAGGGGAACGAGCCTGGAACCAAAGTGCAGCATTGTCACTACTGCAGCGGCTCAGGCATGGAAACCATCAATACAGGGCCTTTTGTGATGCGTTCCACGTGTCGGAGATGTGGTGGACGGGGCTCCATCATCACAAACCCTTGTGTGGTCTGCAGAGGAGCAGGACAAGCCAAGCAGAAGAAGCGAGTGACAGTCCCTGTGCCTGCAGGAGTTGAAGATGGCCAGACTGTAAGGATGCCTGTGGGAAAACGAGAAATTTTTGTCACATTCAGGGTGCAGAAGAGCCCTGTGTTCCGGAGGGACGGCGCAGACATCCACTCCGACCTCTTTATTTCAATAGCTCAAGCTATTCTTGGGGGTACAGCCAAAGCGCAGGGCCTGTATGAGACAATCAATGTGACGATCCCTGCTGGGATTCAGACAGACCAGAAGATTCGCTTGACTGGGAAAGGCATCCCCCGTATTAATAGCTATGGCTATGGTGACCACTACATTCACATTAAGATCAGAGTTCCAAAGAGGCTAAGCAGTAGGCAGCAGAACCTGATCCTGAGCTATGCTGAGGATGAGACCGATGTGGAGGGGACAGTGAATGGAGTCACCCACACAAGCACTGGAAAACGGTCAACTGGAAACTAGATGGAGCAGCAGCCCCTCTCCGTGACCAGGGCATGAGACACGGGAGGATCCCAGAACAGCAGCACTGAGCCCCTGCTTACAGATCCCTCTGAACAGCCCAGCAACAGCAAGCCTATGTGACGACTTCTCTGCATAAAAGGTTACGGTGTCCTAGGCAGTGACGCACGGCCCTCAGGCTGGACACCGAGACAGGTGGGAAGTGCCTGTCCACTGGTAGGTGACTGCTGCTTCTGGTTCAGGCAGGAAAACACTTGGACTCTTCTTGCAGCACTAAGATAATCTGGAATCGCATGTCGTAGAGAGCTGAAAGAATTAAAGACCCGTGCTTACAGCTTAAA

Publications

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