RCPedia: Rtcs

Summary

Retrocopy Name	DBIP3	Plot displaying the genomic locations of a retrocopy (in chr16) and its respective parental gene (in chr2). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr16:4130594-4131033 UCSC
Coordinates (T2T)	chr16:4157919-4158358 UCSC
Coordinates (hg19)	chr16:4180595-4181034 UCSC
Strand	+
Parental Sequence	NM_020548.9
Parental seq. overlap	374 bp
Parental seq. overlap (%)	54.9%
Genomic Region	Intergenic
Retrocopy Summary	DBIP3, located on chr16:4130594-4131033, is a retrocopy of the parental gene DBI. 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	DBI
Full Name	diazepam binding inhibitor, acyl-CoA binding protein
Also known as	ACBD1\|ACBP\|CCK-RP\|EP
Coordinate	chr2:119366977-119372543
Strand	+
Gene summary	This gene encodes diazepam binding inhibitor, a protein that is regulated by hormones and is involved in lipid metabolism and the displacement of beta-carbolines and benzodiazepines, which modulate signal transduction at type A gamma-aminobutyric acid receptors located in brain synapses. The protein is conserved from yeast to mammals, with the most highly conserved domain consisting of seven contiguous residues that constitute the hydrophobic binding site for medium- and long-chain acyl-Coenzyme A esters. Diazepam binding inhibitor is also known to mediate the feedback regulation of pancreatic secretion and the postprandial release of cholecystokinin, in addition to its role as a mediator in corticotropin-dependent adrenal steroidogenesis. Three pseudogenes located on chromosomes 6, 8 and 16 have been identified. Multiple transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Jul 2008]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	DBIP3
Bonobo	Pan paniscus	DBIP3
Gorilla	Gorilla gorilla	DBIP3
Gibbon	Nomascus leucogenys	DBIP3
Green monkey	Chlorocebus sabaeus	DBIP2
Rhesus	Macaca mulatta	DBIP4
Baboon	Papio anubis	DBIP4
Golden snub-nosed monkey	Rhinopithecus roxellana	DBIP4
Marmoset	Callithrix jacchus	DBIP3
Orangutan	Pongo abelii	Without Homology
Crab-eating macaque	Macaca fascicularis	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

>DBIP3
AGCACTTTAAGACCAAGCCAGCAGATGATGAGATGCGGTTCCTCTACGGCCACTACAAACGAGCGACTGTAGGCAACATAAAGACAGAACGGCCCAGGATGGTGGACTTCAAGGGCAAAGCCAAGTGAGATCCCTGGAATTAGCTGAAAGGGGCTGCCAGGGAAGATCCCATGAAAGCTAAAGCTTACGTCAACAAAGTAGAAGAGTTAAAGAAAAAATTCAGAATACGAGAGACTGGAATTGGTTGCCAGCCATGCCTTTGTCCTAAACTGAGACAATGCCTTGTTTTTTCTAACACTGTGGATGGTGGGAACTGATGGAAAGAATCAGCTAACCCATCCTCAAGGCTACTCAGGATAAAGTTCTAATAGATTAGGGGCTAAAACGATTACTGACCTTCCCTCAGTAGTTTTTATCTGAGATCAATTAAGTGTATTTGT

>NM_020548.9
AGTGCAATCTGGGCGATCGCTTCCTGGTCCTCGCCTCCTCCGCTGTCTCCCTGGAGTTCTTGCAAGTCGGCCAGGATGTCTCAGGTACAGCGCGTGCACAGCCAGGCTGCGAAGACCCTTGTCTGAGACCGAGCTATGTGGGGCGACCTCTGGCTCCTCCCGCCTGCCTCTGCCAATCCGGGCACTGGGACAGAGGCTGAGTTTGAGAAAGCTGCAGAGGAGGTTAGGCACCTTAAGACCAAGCCATCGGATGAGGAGATGCTGTTCATCTATGGCCACTACAAACAAGCAACTGTGGGCGACATAAATACAGAACGGCCCGGGATGTTGGACTTCACGGGCAAGGCCAAGTGGGATGCCTGGAATGAGCTGAAAGGGACTTCCAAGGAAGATGCCATGAAAGCTTACATCAACAAAGTAGAAGAGCTAAAGAAAAAATACGGGATATGAGAGACTGGATTTGGTTACTGTGCCATGTGTTTATCCTAAACTGAGACAATGCCTTGTTTTTTTCTAATACCGTGGATGGTGGGAATTCGGGAAAATAACCAGTTAAACCAGCTACTCAAGGCTGCTCACCATACGGCTCTAACAGATTAGGGGCTAAAACGATTACTGACTTTCCTTGAGTAGTTTTTATCTGAAATCAATTAAAAGTGTATTTGTTACTTTAAA

>NM_020548.9 

AGTGCAATCTGGGCGATCGCTTCCTGGTCCTCGCCTCCTCCGCTGTCTCCCTGGAGTTCTTGCAAGTCGGCCAGGATGTCTCAGGTACAGCGCGTGCACAGCCAGGCTGCGAAGACCCTTGTCTGAGACCGAGCTATGTGGGGCGACCTCTGGCTCCTCCCGCCTGCCTCTGCCAATCCGGGCACTGGGACAGAGGCTGAGTTTGAGAAAGCTGCAGAGGAGGTTAGGCACCTTAAGACCAAGCCATCGGATGAGGAGATGCTGTTCATCTATGGCCACTACAAACAAGCAACTGTGGGCGACATAAATACAGAACGGCCCGGGATGTTGGACTTCACGGGCAAGGCCAAGTGGGATGCCTGGAATGAGCTGAAAGGGACTTCCAAGGAAGATGCCATGAAAGCTTACATCAACAAAGTAGAAGAGCTAAAGAAAAAATACGGGATATGAGAGACTGGATTTGGTTACTGTGCCATGTGTTTATCCTAAACTGAGACAATGCCTTGTTTTTTTCTAATACCGTGGATGGTGGGAATTCGGGAAAATAACCAGTTAAACCAGCTACTCAAGGCTGCTCACCATACGGCTCTAACAGATTAGGGGCTAAAACGATTACTGACTTTCCTTGAGTAGTTTTTATCTGAAATCAATTAAAAGTGTATTTGTTACTTTAAA

Publications

PMID - Link	Title