RCPedia: Rtcs

Summary

Retrocopy Name	FABP5P4	Plot displaying the genomic locations of a retrocopy (in chr13) and its respective parental gene (in chr8). Each line represents a retrocopy.
Species	Homo sapiens
Coordinates (hg38)	chr13:92180510-92180858 UCSC
Coordinates (T2T)	chr13:91383656-91384004 UCSC
Coordinates (hg19)	chr13:92832763-92833111 UCSC
Strand	-
Parental Sequence	NM_001444.3
Parental seq. overlap	316 bp
Parental seq. overlap (%)	46.7%
Genomic Region	Intragenic (GPC5)
Retrocopy Summary	FABP5P4, located on chr13:92180510-92180858, is a retrocopy of the parental gene FABP5. 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	FABP5
Full Name	fatty acid binding protein 5
Also known as	E-FABP\|EFABP\|KFABP\|PA-FABP\|PAFABP
Coordinate	chr8:81280536-81284775
Strand	+
Gene summary	This gene encodes the fatty acid binding protein found in epidermal cells, and was first identified as being upregulated in psoriasis tissue. Fatty acid binding proteins are a family of small, highly conserved, cytoplasmic proteins that bind long-chain fatty acids and other hydrophobic ligands. FABPs may play roles in fatty acid uptake, transport, and metabolism. Polymorphisms in this gene are associated with type 2 diabetes. The human genome contains many pseudogenes similar to this locus.[provided by RefSeq, Feb 2011]

Homology

Species	Scientific Name	Retrocopy
Chimpanzee	Pan troglodytes	FABP5P9
Bonobo	Pan paniscus	FABP5P9
Gorilla	Gorilla gorilla	FABP5P8
Orangutan	Pongo abelii	FABP5P9
Gibbon	Nomascus leucogenys	FABP5P4
Green monkey	Chlorocebus sabaeus	FABP5P2
Crab-eating macaque	Macaca fascicularis	FABP5P7
Rhesus	Macaca mulatta	FABP5P8
Baboon	Papio anubis	FABP5P9
Golden snub-nosed monkey	Rhinopithecus roxellana	FABP5P13
Marmoset	Callithrix jacchus	FABP5P1
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

>FABP5P4
TTTACAGCTGGTGCAGAGGTTCAGCATCAGGATTGGGATGGGAAGGAAAGAAAATTAACAAGAAAATTGAAAGATGGGAAATTAGTGGTGAACGGTGTCATGAACAGTGTCAGCTGTACTTGTAGCTATGAAAAAGTAGAATAAAAATTCCATCATCACTTTGGATAGGAATTAGCTAGGAGAATGAACAAGCTCAGTTGAATGAGAAAATCTCCATACGGCTGCTTTTTTTCTTTTCATTACTGTGTTCAGTGATCTTTATCACAAACATTTTACATGCAGCTATTTCAAAGTGTTGGATTAATTAGGATCATCCCTTTGGTTAATGAATAAATGTGTTTGTACTAAT

>NM_001444.3
ACAGCACGCTGCCACGCCGACGCAGACCCCTCTCTGCACGCCAGCCCGCCCGCACCCACCATGGCCACAGTTCAGCAGCTGGAAGGAAGATGGCGCCTGGTGGACAGCAAAGGCTTTGATGAATACATGAAGGAGCTAGGAGTGGGAATAGCTTTGCGAAAAATGGGCGCAATGGCCAAGCCAGATTGTATCATCACTTGTGATGGTAAAAACCTCACCATAAAAACTGAGAGCACTTTGAAAACAACACAGTTTTCTTGTACCCTGGGAGAGAAGTTTGAAGAAACCACAGCTGATGGCAGAAAAACTCAGACTGTCTGCAACTTTACAGATGGTGCATTGGTTCAGCATCAGGAGTGGGATGGGAAGGAAAGCACAATAACAAGAAAATTGAAAGATGGGAAATTAGTGGTGGAGTGTGTCATGAACAATGTCACCTGTACTCGGATCTATGAAAAAGTAGAATAAAAATTCCATCATCACTTTGGACAGGAGTTAATTAAGAGAATGACCAAGCTCAGTTCAATGAGCAAATCTCCATACTGTTTCTTTCTTTTTTTTTTCATTACTGTGTTCAATTATCTTTATCATAAACATTTTACATGCAGCTATTTCAAAGTGTGTTGGATTAATTAGGATCATCCCTTTGGTTAATAAATAAATGTGTTTGTGCTAA

>NM_001444.3 

ACAGCACGCTGCCACGCCGACGCAGACCCCTCTCTGCACGCCAGCCCGCCCGCACCCACCATGGCCACAGTTCAGCAGCTGGAAGGAAGATGGCGCCTGGTGGACAGCAAAGGCTTTGATGAATACATGAAGGAGCTAGGAGTGGGAATAGCTTTGCGAAAAATGGGCGCAATGGCCAAGCCAGATTGTATCATCACTTGTGATGGTAAAAACCTCACCATAAAAACTGAGAGCACTTTGAAAACAACACAGTTTTCTTGTACCCTGGGAGAGAAGTTTGAAGAAACCACAGCTGATGGCAGAAAAACTCAGACTGTCTGCAACTTTACAGATGGTGCATTGGTTCAGCATCAGGAGTGGGATGGGAAGGAAAGCACAATAACAAGAAAATTGAAAGATGGGAAATTAGTGGTGGAGTGTGTCATGAACAATGTCACCTGTACTCGGATCTATGAAAAAGTAGAATAAAAATTCCATCATCACTTTGGACAGGAGTTAATTAAGAGAATGACCAAGCTCAGTTCAATGAGCAAATCTCCATACTGTTTCTTTCTTTTTTTTTTCATTACTGTGTTCAATTATCTTTATCATAAACATTTTACATGCAGCTATTTCAAAGTGTGTTGGATTAATTAGGATCATCCCTTTGGTTAATAAATAAATGTGTTTGTGCTAA

Publications

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