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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name ACTL6AP1
Plot displaying the genomic locations of a retrocopy (in chr14) and its respective parental gene (in chr3). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr14:49681260-49681481  UCSC
Coordinates (T2T) chr14:43879306-43879527  UCSC
Coordinates (hg19) chr14:50147978-50148199  UCSC
Strand +
Parental Sequence NM_177989.4
Parental seq. overlap 188 bp
Parental seq. overlap (%) 11%
Genomic Region Intragenic (POLE2)
Retrocopy Summary ACTL6AP1, located on chr14:49681260-49681481, is a retrocopy of the parental gene ACTL6A. 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 ACTL6A
Full Name actin like 6A
Also known as ACTL6|ARPN-BETA|Arp4|BAF53A|INO80K|SMARCN1
Coordinate chr3:179562926-179588407
Strand +
Gene summary This gene encodes a family member of actin-related proteins (ARPs), which share significant amino acid sequence identity to conventional actins. Both actins and ARPs have an actin fold, which is an ATP-binding cleft, as a common feature. The ARPs are involved in diverse cellular processes, including vesicular transport, spindle orientation, nuclear migration and chromatin remodeling. This gene encodes a 53 kDa subunit protein of the BAF (BRG1/brm-associated factor) complex in mammals, which is functionally related to SWI/SNF complex in S. cerevisiae and Drosophila; the latter is thought to facilitate transcriptional activation of specific genes by antagonizing chromatin-mediated transcriptional repression. Together with beta-actin, it is required for maximal ATPase activity of BRG1, and for the association of the BAF complex with chromatin/matrix. Three transcript variants that encode two different protein isoforms have been described. [provided by RefSeq, Jul 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes ACTL6AP1
Bonobo Pan paniscus ACTL6AP1
Gorilla Gorilla gorilla ACTL6AP1
Orangutan Pongo abelii ACTL6AP1
Gibbon Nomascus leucogenys ACTL6AP1
Green monkey Chlorocebus sabaeus ACTL6AP1
Crab-eating macaque Macaca fascicularis ACTL6AP1
Rhesus Macaca mulatta ACTL6AP1
Baboon Papio anubis ACTL6AP1
Marmoset Callithrix jacchus ACTL6AP1
Golden snub-nosed monkey Rhinopithecus roxellana 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

Related Sequence

>ACTL6AP1
CCTATGGCAGTGTGGCAGTGGCAAGAGGAAACATGCTGATACAGTTTTACTGACAGGTTGAATAGAGAGGTGTCTCAGAAAACTCCCCGAAGTATATGGCTGAAATGGACTGCAAATCATAAAAAACTGGAACAGAGGTTTAGTTCATGTATTGGTGGCCCCATTCTAGCTTCTTTGGGCATGTTTCAACAGATGTGACTTTCCAAAAAAGAACATGAAGAA
>NM_177989.4
AAGTGTGGCTGAGCTCCGGGGTGTGTGGACGCCGCTTTGTTGCCTGAGATGAAGTTGGAGCCCTTGTTTTTGACATTGGATCCTATACTGTGAGAGCTGGTTATGCTGGTGAGGACTGCCCCAAGGTGGATTTTCCTACAGCTATTGGTATGGTGGTAGAAAGAGATGACGGAAGCACATTAATGGAAATAGATGGCGATAAAGGCAAACAAGGCGGTCCCACCTACTACATAGATACTAATGCTCTGCGTGTTCCGAGGGAGAATATGGAGGCCATTTCACCTCTAAAAAATGGGATGGTTGAAGACTGGGATAGTTTCCAAGCTATTTTGGATCATACCTACAAAATGCATGTCAAATCAGAAGCCAGTCTCCATCCTGTTCTCATGTCAGAGGCACCGTGGAATACTAGAGCAAAGAGAGAGAAACTGACAGAGTTAATGTTTGAACACTACAACATCCCTGCCTTCTTCCTTTGCAAAACTGCAGTTTTGACAGCATTTGCTAATGGTCGTTCTACTGGGCTGATTTTGGACAGTGGAGCCACTCATACCACTGCAATTCCAGTCCACGATGGCTATGTCCTTCAACAAGGCATTGTGAAATCCCCTCTTGCTGGAGACTTTATTACTATGCAGTGCAGAGAACTCTTCCAAGAAATGAATATTGAATTGGTTCCTCCATATATGATTGCATCAAAAGAAGCTGTTCGTGAAGGATCTCCAGCAAACTGGAAAAGAAAAGAGAAGTTGCCTCAGGTTACGAGGTCTTGGCACAATTATATGTGTAATTGTGTTATCCAGGATTTTCAAGCTTCGGTACTTCAAGTGTCAGATTCAACTTATGATGAACAAGTGGCTGCACAGATGCCAACTGTTCATTATGAATTCCCCAATGGCTACAATTGTGATTTTGGTGCAGAGCGGCTAAAGATTCCAGAAGGATTATTTGACCCTTCCAATGTAAAGGGGTTATCAGGAAACACAATGTTAGGAGTCAGTCATGTTGTCACCACAAGTGTTGGGATGTGTGATATTGACATCAGACCAGGTCTCTATGGCAGTGTAATAGTGGCAGGAGGAAACACACTAATACAGAGTTTTACTGACAGGTTGAATAGAGAGCTGTCTCAGAAAACTCCTCCAAGTATGCGGTTGAAATTGATTGCAAATAATACAACAGTGGAACGGAGGTTTAGCTCATGGATTGGCGGCTCCATTCTAGCCTCTTTGGGTACCTTTCAACAGATGTGGATTTCCAAGCAAGAATATGAAGAAGGAGGGAAGCAGTGTGTAGAAAGAAAATGCCCTTGAGAAAGAGTTCCCAAGCTTCTACCTTCCTTTTGTCACCTTACGTTTCATAGCTTTAGTATACTCAGGAAAAGAATGACCATCTTTTGTAGAATGTTTATACATTTTTGCATATTTCAATTTCCACTTAAATTTTTTAAAGCTTTAACTGGCTCTATAAATTAAGTTTGTGCTTTCCTTGAAATGCACTTATTCTTATTACAAGCATTTTATAATTTTGTATAAATGTCTATTTTCTCTAAATATTTTGCTTTCAGTAAAATGCTTTCCAACTCTGTTTAGTGTATTAATTACCAGTGGATTGGTAGAACTGCTTTTTATTGACTAGTAAAAGTTACTGCCTATGCTTTTTACCTTAGGCTTACAGAATTAAATAAAAATTAGCCATTCCAGAAATATA

Publications

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