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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name ATP6V1E1P2
Plot displaying the genomic locations of a retrocopy (in chr18) and its respective parental gene (in chr22). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr18:26951693-26952553  UCSC
Coordinates (T2T) chr18:27145725-27146585  UCSC
Coordinates (hg19) chr18:24531657-24532517  UCSC
Strand -
Parental Sequence NM_001039366.1
Parental seq. overlap 726 bp
Parental seq. overlap (%) 53.2%
Genomic Region Intragenic (CHST9)
Retrocopy Summary ATP6V1E1P2, located on chr18:26951693-26952553, is a retrocopy of the parental gene ATP6V1E1. 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 ATP6V1E1
Full Name ATPase H+ transporting V1 subunit E1
Also known as ARCL2C|ATP6E|ATP6E2|ATP6V1E|P31|Vma4
Coordinate chr22:17592136-17628822
Strand -
Gene summary This gene encodes a component of vacuolar ATPase (V-ATPase), a multisubunit enzyme that mediates acidification of eukaryotic intracellular organelles. V-ATPase dependent organelle acidification is necessary for such intracellular processes as protein sorting, zymogen activation, receptor-mediated endocytosis, and synaptic vesicle proton gradient generation. V-ATPase is composed of a cytosolic V1 domain and a transmembrane V0 domain. The V1 domain consists of three A, three B, and two G subunits, as well as a C, D, E, F, and H subunit. The V1 domain contains the ATP catalytic site. This gene encodes alternate transcriptional splice variants, encoding different V1 domain E subunit isoforms. Pseudogenes for this gene have been found in the genome. [provided by RefSeq, Jul 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes ATP6V1E1P3
Bonobo Pan paniscus ATP6V1E1P3
Gorilla Gorilla gorilla ATP6V1E1P3
Orangutan Pongo abelii ATP6V1E1P3
Gibbon Nomascus leucogenys ATP6V1E1P1
Green monkey Chlorocebus sabaeus ATP6V1E1P3
Golden snub-nosed monkey Rhinopithecus roxellana ATP6V1E1P4
Crab-eating macaque Macaca fascicularis Without Homology
Rhesus Macaca mulatta Without Homology
Baboon Papio anubis 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
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

>ATP6V1E1P2
CAAGGTGGTAAAAGATACACCCAGGTACCAAGTGCTGCTGGATGGACTGGTCCTCCAGGGTTTATACCAATTGTCAGAGCCCCAAATGACTGTTCATTGCAGGAAATAAGATTTCCCTCCGGTAAAAACTATGGTGCAAAGGCAGTCTCTATGTACAAAATCCCCACCACAGACAATTGTTGATGTCCCAATTGCCCAGGAGTCCTACCTGCCTGAGGACATAGTTGGTGGAGTTGAGATCCACAATGGGGATTGTAAAATAAAGGTTTCCAACACCCTGAAAAGCCGACTGGATCTCAGGCCAGCAGATGATGCCAGAAGTCCGGGGAGCCTTGTTTGGTCCAAATGCCAACAGCTTTTGGGAGGTGAAGTCCATCCCTAGCCCTCCTGCTATGATGTGGAAGCTTCTGATATTTGAAGAAACAAGAATGTCTAAGTGGCTTCCTCTTTGCTGTTCGAGTATTGCTCTGTCTTTTTCAGTGGATGCCCCTCTGTCACTAATGTCCTTGCCTAATTGCTAACAATGGGAGAGAGTGTCATGTAATATGATCAGGAACCCACCTCTAGTTTATCTCAAAGTAGCACAGCTCCAGTTGGTTCTGCAGCATTAGGTGATGGGAGCAGATGGTGGCTGCATGCACTTCACCAAGATCTTCCTCTGGCTCCCAGCAACCTAGTCTAGAGGTGATGTGTATGGTGTTCTCTGCCCTGAAGTCTCTGCTCTTGAGATTTAAGACACAGGTGGCACATTATTCCTTCCAGCAGTAGTAGCTTCACTGTTACTGTTTGGGCCTAGAAATTTTCCTCATCTATAAATGTGATCTAAAATCTAAGCCATGAATGTGCTTTATTTATTAAAAC
>NM_001039366.1
CTCTTCCCATTGGCTGAGAAGGGTCATGAGGATGAACTGTGCAGTCACCTGGCAGGAACCGGAACCCGCGGTTATAAAGTAAAGGAACCCGAGATCTGCGCAGGGGTTCCCTTTGCCGATTTCTCTCACCTCACCTTTCAAACCTAAACTCGAGCCTACTGTTCACCGGCCTAGCATTGCTCTCGCCATGGCTCTCAGCGATGCTGACGTGCAAAAGCAGGCAGAAGAAGAGTTCAACATAGAGAAAGGTCGGCTTGTGCAAACCCAAAGACTAAAGATTATGGAATATTATGAGAAGAAAGAGAAACAGATTGAGCAGCAGAAGAAAATTCAGATGTCCAATTTGATGAATCAAGCGAGACTCAAAGTCCTCAGAGCAAGAGATGACCTTATCACAGACCTACTAAATGAAGCAAAACAGAGACTCAGCAAGGTGGTAAAAGATACAACCAGGTACCAAGTGCTGCTGGATGGACTGGTTCTCCAGGGTTTGTACCAGTTGCTGGAGCCCCGAATGATTGTTCGTTGCAGGAAACAAGATTTCCCTCTGGTAAAGGCTGCAGTGCAGAAGGCAATTCCTATGTACAAAATTGCCACCAAAAACGATGTTGATGTCCAAATTGACCAGGAGTCCTACCTGCCTGAAGACATAGCTGGTGGAGTTGAGATCTATAATGGAGATCGTAAAATAAAGGTTTCCAACACCCTGGAAAGCCGGCTGGATCTCATAGCCCAGCAGATGATGCCAGAAGTCCGGGGAGCCTTGTTTGGTGCAAATGCCAACAGGAAGTTTTTGGACTAAGCCTTCAGGAGGTGGAGCTCGTCGTCAGCTCTCCTGCTGTGATGTGGAAGCTTCTGATATTTGAAGAAACACGAATGTCTCTGTAGCTTCCTCTTCACTGCCCCAGTATTGCTCTGTATTTATCAGCGATGCCCCTCTGTCACTCATGCCTTGCCTAATTGTTCACAATGGTGGAAAGCTTCATGTAATATGATCAGGACCCACCTCCAGTTCTTCTGAAAGTGTGACAGTGTCCAGCCGGTTCTGCAGCACTAGGGGAGGGGGCAGATGGTGGTTGCATGGGCTTCCTGGGTCTCCACTCTCCGTCTGGCCTAAAGGTGATGTATTTGGTGTTTGGCCCTGCAGTCCCCACTCTTGAGGCTTAAGGCGCATGTGGCACACCACTCCTTCCAGCAGTAGTCGCTTTACTGTTACCTGTTTAGGCCTAGAAGTTTTCCCTCATCTGTAAATGTGATTTAAAATCTAAGCCATGAATATGCTTTATTTATTAAAAGAGTTATGCGGATTTAATGTGATTTCTAGTGTAAGGCACTACAAA

Publications

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