RCPedia: Rtcs

Summary

Retrocopy Name	HmbsP1	Plot displaying the genomic locations of a retrocopy (in chr1) and its respective parental gene (in chr9). Each line represents a retrocopy.
Species	Mus musculus
Coordinates	chr1:136720765-136721570 UCSC
Strand	+
Parental Sequence	NM_013551.2
Parental seq. overlap	793 bp
Parental seq. overlap (%)	49.7%
Genomic Region	Intergenic
Retrocopy Summary	HmbsP1, located on chr1:136720765-136721570, is a retrocopy of the parental gene Hmbs. 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	Hmbs
Full Name	hydroxymethylbilane synthase
Also known as	PBGD\|Ups\|Uros1
Coordinate	chr9:44247645-44255525
Strand	-
Gene summary	Predicted to enable several functions, including amine binding activity; hydroxymethylbilane synthase activity; and uroporphyrinogen-III synthase activity. Predicted to be involved in heme biosynthetic process; liver development; and response to xenobiotic stimulus. Predicted to be located in several cellular components, including axon; cytosol; and perinuclear region of cytoplasm. Predicted to be active in cytoplasm. Predicted to colocalize with condensed chromosome. Is expressed in several structures, including alimentary system; brain; genitourinary system; hemolymphoid system; and respiratory system. Used to study acute intermittent porphyria. Human ortholog(s) of this gene implicated in acute intermittent porphyria and sickle cell anemia. Orthologous to human HMBS (hydroxymethylbilane synthase). [provided by Alliance of Genome Resources, Apr 2022]

Homology

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

>HmbsP1
AGTGGGCCAGATTTTGCACCCAGAGGAATGCATGTATGCTGTGGGTCAGGGAGCCCTAGCCGTGGAAGTCCGAGCCAAGGACCAGGATATCTTGGACCTAGTGAGTGTGTTGCACGATCCTGAAACTCTGCTTCGCTGCATTGCTGAAAGGGCTTTTCTGAGGCACCTGGAAGGAGGCTGCAGCGTGCCCGTAGCAGTGCATGCAGTGATGAAAGATGGGCAACTGTGCCTGACTGGTGGAGTCTGGAGTCTAGATGGCTCAGATAGCATGCAAGAGACTATGCAGGCTACCATCCAGGTCCCTGTTCAGCAAGAAGATGGTCCAGAAGATGACCCACAACTGGTTGGGATCACTGCCCGGAACATTCCAAGAGGAGCCCAGCTAGCTGCTGAGAACTTGGGCATCAGCctggccagcttgctgctcaacAAAGGAGCCAAGAACATCCTGGATGTTGCACGGCAGCTTAATGATGTGCGCTAACTGGTCTGTAGGGCACAGGAACCCTGGCTGCCACTCTAGTGCCTACTTCTGGCTTCCAAGTGCCCTGTGCTCCATCACTAGGGGTGTGATTATCCCAGGAAATTGAACCACGGGGTTGTTGAGACTTCCACTTTGGAAGATATGCCTCACCTTGGGGCCTCCATATCTGCCTTTCCCTCAGTAGTTGGGGGCTTCATCTCTTTAGAGAAAGTCCATGCCAATCTTTGAATGTAACCAATACCACTAATAAACCAGTTTAGAATGTGGTTCTTCTGATAAGAGTTGGGGAAGATATGAATAAACCCAAAGcccttttaaactt

>NM_013551.2
GAGGAAGGCACCGCCCCGTTGAGGGAGGGCAGCGGACGTGACGCAGAGCTCAGCAGGTCCTGCAGCCGGAGTGAAGTGCGGGCTCGGGCCCCATGTGCCTTCAGTCCCGGCCGGCCCAGGTCGCCGGCTTCTGCAGACACCAGGGGACCGCAGCGGCACTGCCGCGCCTGCGCCCTGGGCGGAGTCATGTCCGGTAACGGCGGCGCGGCCACAACCGCGGAAGAAAACGGCTCAAAGATGAGGGTGATTCGAGTGGGCACCCGTAAGAGCCAGCTGGCTCGCATACAGACCGACACTGTGGTGGCGATGCTGAAAGCCTTGTACCCTGGCATACAGTTTGAAATCATTGCTATGTCCACCACGGGAGACAAGATTCTTGATACTGCACTCTCTAAGATTGGAGAGAAGAGCCTGTTTACCAAGGAGCTAGAAAACGCCCTGGAAAAAAACGAAGTGGACCTGGTCGTTCACTCCCTGAAGGATGTGCCTACCATACTACCTCCTGGCTTTACTATTGGAGCCATCTGCAAACGGGAAAACCCTTGTGATGCTGTTGTCTTTCACCCAAAGTTTATTGGAAAGACCCTGGAAACCTTGCCAGAGAAAAGTGCCGTGGGAACCAGCTCTCTGAGGAGAGTGGCTcagctacagagaaagttccccCACCTGGAATTCAAGAGTATTCGGGGAAACCTCAACACCCGCCTCCGGAAGCTGGATGAGCTGCAGGAATTCAGTGCCATCGTCCTGGCTGTGGCTGGCCTACAGCGCATGGGCTGGCAGAACCGGGTGGGCCAGATTTTGCACCCAGAAGAATGCATGTATGCTGTGGGTCAGGGAGCCCTAGCCGTGGAAGTCCGAGCCAAGGACCAGGATATCTTGGACCTAGTGAGTGTGTTGCACGATCCTGAAACTCTGCTTCGCTGCATTGCTGAAAGGGCTTTTCTGAGGCACCTGGAAGGAGGCTGCAGCGTGCCCGTAGCAGTGCATACAGTGATGAAAGATGGGCAACTGTACCTGACTGGTGGAGTCTGGAGTCTAGATGGCTCAGATAGCATGCAAGAGACTATGCAGGCCACCATCCAGGTCCCTGTTCAGCAAGAAGATGGTCCAGAAGATGACCCACAACTGGTTGGAATCACTGCCCGTAACATTCCAAGAGGAGCCCAGCTAGCTGCTGAGAACCTGGGCATCAGCctggccagcttgctgctcaacAAAGGAGCCAAGAACATCCTGGATGTTGCACGGCAGCTTAATGATGTGCGCTAACTGGTCTGTAGGGCACAGGAACCCTGGCTGCCACTCCACTGCCTACTTCTGGCTTCCAAgtgccctgtgctccatccctaGGGATGTGATTATCCCAGGAAATTGAACCACGGGGTTGTTGAGACTTCCACTTTGGAAGATATGCCTCACCTTGGGGCCTCCATATCTGCCTTTCCCTCAGTAGTTGGGGGCTTCATCTCTTTAGAGAAAGTCCATGCCAATCTTTGAATGTAACCAATACCACTAATAAACCAGTTTAGAATGTGGTTCTTCTGATAGAGTTGGGGAAGATATGAATAAACCCAAAGCCCTTTTAAACTTGAA

>NM_013551.2 

GAGGAAGGCACCGCCCCGTTGAGGGAGGGCAGCGGACGTGACGCAGAGCTCAGCAGGTCCTGCAGCCGGAGTGAAGTGCGGGCTCGGGCCCCATGTGCCTTCAGTCCCGGCCGGCCCAGGTCGCCGGCTTCTGCAGACACCAGGGGACCGCAGCGGCACTGCCGCGCCTGCGCCCTGGGCGGAGTCATGTCCGGTAACGGCGGCGCGGCCACAACCGCGGAAGAAAACGGCTCAAAGATGAGGGTGATTCGAGTGGGCACCCGTAAGAGCCAGCTGGCTCGCATACAGACCGACACTGTGGTGGCGATGCTGAAAGCCTTGTACCCTGGCATACAGTTTGAAATCATTGCTATGTCCACCACGGGAGACAAGATTCTTGATACTGCACTCTCTAAGATTGGAGAGAAGAGCCTGTTTACCAAGGAGCTAGAAAACGCCCTGGAAAAAAACGAAGTGGACCTGGTCGTTCACTCCCTGAAGGATGTGCCTACCATACTACCTCCTGGCTTTACTATTGGAGCCATCTGCAAACGGGAAAACCCTTGTGATGCTGTTGTCTTTCACCCAAAGTTTATTGGAAAGACCCTGGAAACCTTGCCAGAGAAAAGTGCCGTGGGAACCAGCTCTCTGAGGAGAGTGGCTcagctacagagaaagttccccCACCTGGAATTCAAGAGTATTCGGGGAAACCTCAACACCCGCCTCCGGAAGCTGGATGAGCTGCAGGAATTCAGTGCCATCGTCCTGGCTGTGGCTGGCCTACAGCGCATGGGCTGGCAGAACCGGGTGGGCCAGATTTTGCACCCAGAAGAATGCATGTATGCTGTGGGTCAGGGAGCCCTAGCCGTGGAAGTCCGAGCCAAGGACCAGGATATCTTGGACCTAGTGAGTGTGTTGCACGATCCTGAAACTCTGCTTCGCTGCATTGCTGAAAGGGCTTTTCTGAGGCACCTGGAAGGAGGCTGCAGCGTGCCCGTAGCAGTGCATACAGTGATGAAAGATGGGCAACTGTACCTGACTGGTGGAGTCTGGAGTCTAGATGGCTCAGATAGCATGCAAGAGACTATGCAGGCCACCATCCAGGTCCCTGTTCAGCAAGAAGATGGTCCAGAAGATGACCCACAACTGGTTGGAATCACTGCCCGTAACATTCCAAGAGGAGCCCAGCTAGCTGCTGAGAACCTGGGCATCAGCctggccagcttgctgctcaacAAAGGAGCCAAGAACATCCTGGATGTTGCACGGCAGCTTAATGATGTGCGCTAACTGGTCTGTAGGGCACAGGAACCCTGGCTGCCACTCCACTGCCTACTTCTGGCTTCCAAgtgccctgtgctccatccctaGGGATGTGATTATCCCAGGAAATTGAACCACGGGGTTGTTGAGACTTCCACTTTGGAAGATATGCCTCACCTTGGGGCCTCCATATCTGCCTTTCCCTCAGTAGTTGGGGGCTTCATCTCTTTAGAGAAAGTCCATGCCAATCTTTGAATGTAACCAATACCACTAATAAACCAGTTTAGAATGTGGTTCTTCTGATAGAGTTGGGGAAGATATGAATAAACCCAAAGCCCTTTTAAACTTGAA

Publications

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