RCPedia: Rtcs

Summary

Retrocopy Name	ATP6V1FP1	Plot displaying the genomic locations of a retrocopy (in chr6) and its respective parental gene (in chr7). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr6:34715612-34716101 UCSC
Coordinates (T2T)	chr6:34539583-34540072 UCSC
Coordinates (hg19)	chr6:34683389-34683878 UCSC
Strand	+
Parental Sequence	NM_004231.4
Parental seq. overlap	428 bp
Parental seq. overlap (%)	62.9%
Genomic Region	Intergenic
Retrocopy Summary	ATP6V1FP1, located on chr6:34715612-34716101, is a retrocopy of the parental gene ATP6V1F. 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	ATP6V1F
Full Name	ATPase H+ transporting V1 subunit F
Also known as	ATP6S14\|VATF\|Vma7
Coordinate	chr7:128862856-128865847
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 and three B subunits, two G subunits plus the C, D, E, F, and H subunits. The V1 domain contains the ATP catalytic site. The V0 domain consists of five different subunits: a, c, c', c", and d. Additional isoforms of many of the V1 and V0 subunit proteins are encoded by multiple genes or alternatively spliced transcript variants. This encoded protein is the V1 domain F subunit protein. [provided by RefSeq, Jul 2008]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	ATP6V1FP1
Bonobo	Pan paniscus	ATP6V1FP1
Gorilla	Gorilla gorilla	ATP6V1FP1
Orangutan	Pongo abelii	ATP6V1FP1
Gibbon	Nomascus leucogenys	ATP6V1FP2
Green monkey	Chlorocebus sabaeus	ATP6V1FP2
Crab-eating macaque	Macaca fascicularis	ATP6V1FP1
Rhesus	Macaca mulatta	ATP6V1FP1
Baboon	Papio anubis	ATP6V1FP1
Golden snub-nosed monkey	Rhinopithecus roxellana	ATP6V1FP1
Marmoset	Callithrix jacchus	ATP6V1FP1
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

>ATP6V1FP1
TGGAGACCAGGACACGGTGACTGCTTTCCTGCCGGGTGGCATAGGGGAGCTTAACAAGAACTACTATCCCAATTTCCTGATGGTGGAGAAGCATACAACCATCAGTGAGATCAAAGACACTTTCCAGCAGTTTCTGAACGGGACAACATTGGCATCATCCTCATCAACCTGTACATTACAGAGATGGTGTGGCACGCCTTGGATACACACCAGTGCCCCATTCCAGTCATCCTGGAGATCCCCTCCGAGGAGCACCCGTATGACACTGTGCCAAGGAATCCATCCTGGGCAGAGCCAGGGACATGTTCTCTGCCGAAGACCTGCGCTAGGGGATTCCTCACAGCCCAAAGCCCCTCCCTCATTTCCAGGCCTCTCCCCAGGCTTGCCATCAGCCTTCTTTAAGTTCTGAGCCTCTGACTTCCAATTCCCACCTCTTCCCACTTCATTAAGAGGCTAGGTGAGGCGCTCCTAGGGTGCTTGGGCTCTGCTG

>NM_004231.4
GTTTCAGTGGCTTCTGGTGCTCTAGGGTGAGCTCTGCCCGGCTGCAGGGATGGCGGGGAGGGGTAAGCTCATCGCAGTGATCGGAGACGAGGACACGGTGACTGGTTTCCTGCTGGGCGGCATAGGGGAGCTTAACAAGAACCGCCATCCCAATTTCCTGGTGGTGGAGAAGGATACAACCATCAATGAGATCGAAGACACTTTCCGGCAATTTCTAAACCGGGATGACATTGGCATCATCCTCATCAACCAGTACATCGCAGAGATGGTGCGGCATGCCCTGGACGCCCACCAGCAGTCCATCCCCGCTGTCCTGGAGATCCCCTCCAAGGAGCACCCATATGACGCCGCCAAGGACTCCATCCTGCGCAGGGCCAGGGGCATGTTCACTGCCGAAGACCTGCGCTAGGGGACTCCTCATAGCCCTCAGCCCTTCCCTCGTTTCCAGGCCTCTCCCCAGGCTTGCCATCAGCCTTCTTTACTTTTTGAGCCTCTGATTTCCAATTCCCTGCTCCTTCCCACTCCATTAAGAGGCTAGGTGAGGCGCTTCTAGGTTGCTGGGGCTCTGCTGGTTAAGGAACAGGAAGCCTGACCATCTCCCTCCACTACCTCTTCCCTGTGCTGTTACACAGTGTCATTGTTGATGTTAAATTAAAGTCATATTCTTGCTTCTCTCCA

>NM_004231.4 

GTTTCAGTGGCTTCTGGTGCTCTAGGGTGAGCTCTGCCCGGCTGCAGGGATGGCGGGGAGGGGTAAGCTCATCGCAGTGATCGGAGACGAGGACACGGTGACTGGTTTCCTGCTGGGCGGCATAGGGGAGCTTAACAAGAACCGCCATCCCAATTTCCTGGTGGTGGAGAAGGATACAACCATCAATGAGATCGAAGACACTTTCCGGCAATTTCTAAACCGGGATGACATTGGCATCATCCTCATCAACCAGTACATCGCAGAGATGGTGCGGCATGCCCTGGACGCCCACCAGCAGTCCATCCCCGCTGTCCTGGAGATCCCCTCCAAGGAGCACCCATATGACGCCGCCAAGGACTCCATCCTGCGCAGGGCCAGGGGCATGTTCACTGCCGAAGACCTGCGCTAGGGGACTCCTCATAGCCCTCAGCCCTTCCCTCGTTTCCAGGCCTCTCCCCAGGCTTGCCATCAGCCTTCTTTACTTTTTGAGCCTCTGATTTCCAATTCCCTGCTCCTTCCCACTCCATTAAGAGGCTAGGTGAGGCGCTTCTAGGTTGCTGGGGCTCTGCTGGTTAAGGAACAGGAAGCCTGACCATCTCCCTCCACTACCTCTTCCCTGTGCTGTTACACAGTGTCATTGTTGATGTTAAATTAAAGTCATATTCTTGCTTCTCTCCA

Publications

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