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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name CHMP4AP1
Plot displaying the genomic locations of a retrocopy (in chr2) and its respective parental gene (in chr14). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr2:81418593-81418938  UCSC
Coordinates (T2T) chr2:81419144-81419489  UCSC
Coordinates (hg19) chr2:81645717-81646062  UCSC
Strand -
Parental Sequence NM_014169.5_2
Parental seq. overlap 294 bp
Parental seq. overlap (%) 29.7%
Genomic Region Intergenic
Retrocopy Summary CHMP4AP1, located on chr2:81418593-81418938, is a retrocopy of the parental gene CHMP4A. 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 CHMP4A
Full Name charged multivesicular body protein 4A
Also known as C14orf123|CHMP4|CHMP4B|HSPC134|SHAX2|SNF7|SNF7-1|VPS32-1|VPS32A
Coordinate chr14:24209615-24213488
Strand -
Gene summary CHMP4A belongs to the chromatin-modifying protein/charged multivesicular body protein (CHMP) family. These proteins are components of ESCRT-III (endosomal sorting complex required for transport III), a complex involved in degradation of surface receptor proteins and formation of endocytic multivesicular bodies (MVBs). Some CHMPs have both nuclear and cytoplasmic/vesicular distributions, and one such CHMP, CHMP1A (MIM 164010), is required for both MVB formation and regulation of cell cycle progression (Tsang et al., 2006 [PubMed 16730941]).[supplied by OMIM, Mar 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes LOC104001982P1
Bonobo Pan paniscus CHMP4AP1
Gorilla Gorilla gorilla MDP1P1
Orangutan Pongo abelii CHMP4AP1
Gibbon Nomascus leucogenys MDP1P1
Green monkey Chlorocebus sabaeus CHMP4AP1
Crab-eating macaque Macaca fascicularis CHMP4AP2
Rhesus Macaca mulatta CHMP4AP2
Baboon Papio anubis MDP1P1
Golden snub-nosed monkey Rhinopithecus roxellana CHMP4AP1
Marmoset Callithrix jacchus CHMP4AP1
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

Related Sequence

>CHMP4AP1
GCCTACCAGGACCTGGACATTGGCAAGGTAGATGAACTGATGGATGACATCACAGAATAGCAGGAGGTGGCCCAGCAGATCTCAGATGCCATTTCTTGACCTGTGGGTTTTGAAGAAGATGTGGGTGATCATGAACTGTTGGAGGAACTAGAGAAGCTGGAGGAGGAATTGGCCCAAGAATTGTTAAATGTGGGGCAACAAGGAGGAAGTGAACCCCAGTCAAATGGCTAGTGTATCCTCCACACTATCTGCCTTCCTGGGAGGGTCGGCTCCCAAAGCAGATGAAGACAAAGAAGCACAAAAGGAGTGGCTGCGTGGGAATCCCGATAAGTCTGGGCTGGTCTTG
>NM_014169.5_2
GGAAGTCTGGAGGACGCTGAGGGGCGGAGGCGGGAGAGGCGAGCTCGCGATGAGTGGTCTCGGCAGGCTCTTCGGGAAGGGGAAGAAGGAGAAAGGGCCAACCCCTGAAGAAGCAATACAGAAACTGAAGGAGACAGAGAAGATACTGATCAAGAAACAGGAATTTTTGGAGCAGAAGATTCAACAGGAGCTACAAACAGCCAAGAAGTATGGGACCAAGAATAAGAGAGCTGCCCTACAGGCTTTGCGGAGGAAGAAAAGATTCGAACAGCAGCTGGCACAAACTGACGGGACATTATCCACCCTGGAGTTTCAGCGTGAGGCCATTGAGAATGCCACTACCAATGCAGAAGTCCTTCGTACCATGGAGCTTGCTGCCCAAAGCATGAAGAAGGCCTACCAGGACATGGACATTGACAAGGTAGATGAACTGATGACTGACATCACGGAACAACAGGAGGTGGCCCAGCAGATCTCAGATGCCATTTCTCGGCCTATGGGCTTTGGAGATGATGTGGATGAGGATGAACTGCTGGAGGAGCTAGAGGAGCTGGAGCAGGAGGAATTGGCCCAGGAGTTGTTAAATGTGGGCGACAAGGAAGAAGAACCCTCAGTCAAATTGCCTAGTGTACCTTCTACTCATCTGCCGGCAGGGCCAGCTCCCAAAGTGGATGAAGATGAAGAAGCACTAAAGCAGTTGGCTGAGTGGGTATCCTGATAAATCTGGGCTTGTCTTCCTAATGCTACCTTTGTTGGTCCTTTCTTCCTTAAGTGCCAAGTGCTGAGCTAAAGGAGGATAACTTTTTGGGGAAGTCATGCTGAGGGTGGTAGTGTGACCCTGCCTGAAAAAAGGGTCTCTTACCCTCCCAGCCCTGGCTCAACTCTGAAGAAGGATCTTGCTACAGAAGGAGCCCTTGGGCTCCCTTCTCTTTGATAGCAGTTATAATGCCCTTGTTCCCAATAAAACTGGGCAGATGGAA

Publications

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