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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name Hax1P4
Plot displaying the genomic locations of a retrocopy (in chr14) and its respective parental gene (in chr3). Each line represents a retrocopy.
Species Mus musculus
Coordinates chr14:101939667-101940577  UCSC
Strand -
Parental Sequence NM_011826.4
Parental seq. overlap 601 bp
Parental seq. overlap (%) 51.7%
Genomic Region Intergenic
Retrocopy Summary Hax1P4, located on chr14:101939667-101940577, is a retrocopy of the parental gene Hax1. 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 Hax1
Full Name HCLS1 associated X-1
Also known as HAX-1|HSP1BP-1|Hs1bp1|SIG-111|Silg111|mHAX-1s
Coordinate chr3:89902753-89906023
Strand -
Gene summary Predicted to enable interleukin-1 binding activity; protein N-terminus binding activity; and protein domain specific binding activity. Predicted to be involved in several processes, including positive regulation of intracellular signal transduction; positive regulation of protein phosphorylation; and regulation of actin cytoskeleton organization. Predicted to act upstream of or within cell surface receptor signaling pathway. Located in several cellular components, including actin cytoskeleton; lamellipodium; and sarcoplasmic reticulum. Is expressed in coelomic epithelium of testis; ovary; and testis mesenchyme. Human ortholog(s) of this gene implicated in severe congenital neutropenia 3. Orthologous to human HAX1 (HCLS1 associated protein X-1). [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

>Hax1P4
GATGATGGCgaagaagaggaaggcagagacccATGGGGTCAAGAGAGCTATAGGTTTGATGGTTCTTGGCCTCTGGAGGAATTCGGTTTCAGCTTCAGCTCCGGAGGAGACATGTGATTTCCTGGCAACTTTGGCTCTGATGTTCTAATACAAGATTTCACTAGTATTTTCATCGAGATGGGGGCCTGGACCTTGCCTTCCCACTTTCCTGAACTTCCAAGTCTTGAGACAGCCAGTGACACCTAAAGAGAAACTGTAGGAAGGGCAGACACTATAGGACTCAATGCTTAAGTACCCAGATAGTCACCAACCCAGGATCTTTGAGGGATACTTGGAGAGTCATGCAAGACCCAAATCTCCCAAACTAGCTCCAGATTGGGAGTCCCAGGGACCTTTTCATTGGATAGCATATGGCCTGTGACTCCCCATTCTAAAGTCTGAGAAGACAATGATCTTGGCTCCAAGGTTTCCCAGGAAGGGCTCCTGTCTACTTCTTCAACCTGAGCCTAATCATACTTCAAGAGCATCTTTGTGACTAAGATTACTAAGCCACATGTGACAGTGGAGGGGCACTGTACTGTGCCCATTGCCAACAAGCTTAGCTTTTTCTATCATCCTAGGGTATTAAGTGTGTGAAACACTTAATTGAGCTTATGGCAATCTGTCATTCATCCAAACTGACCAATAAAGCCTTTATTTATGCTAAAA
>NM_011826.4
AACGCCGCACCGTAGGGTTGCTTTCCGGCAGCGAACGCTGAGCCCTGGCTATATCCGACAGGGTAGCGTAAGCTGGTCGTGGTCTCGTGTTGCCCATGGGCTGCAGAGCTTCAAAGTTTCTAGTGCCCCTACTGGAATGAGCGTCTTTGATCTTTTCCGAGGCTTTTTCGGCTTTCCTGGACCTCGGAGCCACAGAGATCCTTTTTTTGGAGGGATGACTCgagatgatgacgacgatgatgatgatgatgacgaagCGGAGGAAGACAGAGGCGCGTGGGGTCGAGAGAGCTATGCGTTTGAtggttctcagcctccagagGAATTCGGTTTCAGCTTCAGCCCCAGGGGAGGGATGCGATTCCACGGCAACTTTGGCTTTGATGATCTAGTACGAGATTTTAATAGCATCTTCAGCGAGATGGGGGCCTGGACCTTGCCTTCCCACTCTCCTGAACTTCCAGGTCCTGAGTCAGAAACACCTGGTGAGAGACTGCGGGAGGGGCAGACACTACGAGACTCAATGCTTAAGTACCCAGATAGTCACCAACCCAGGATCTTTGAGGGGGTCTTGGAGAGTCATGCAAAACCTGAATCCCCAAAACCAGCTCCAGATTGGGGGTCGCAGGGACCTTTTCATAGGTTGGATGATACATGGCCTGTGAGTCCCCATTCTAGAGCCAAAGAGGACAAAGATCTTGACTCCCAGGTTTCCCAGGAAGGTCTGGGTCCACTtcttcaaccccagcccaaatcGTATTTCAAAAGTATCTCTGTGACCAAGATCACTAAGCCAGATGGGACAGTGGAGGAACGCCGCACTGTGGTAGACAGTGAGGGCCGGAGGGAGACCACAGTGACCCATCAAGAAGCCCATGACAGTTCCAGAAGTGATCCAGACTCTCAGAGATCTTCAGCTTTGGATGATCCCTTTTCCATTCTGGATTTGCTACTAGGACGTTGGTTTCGGTCCCGATAGCGTTCTTAAACAGAGGCCTTCAGGTCCTTCCCACTCCCTTCCTGTTGCCCATTGCCAATAAGCTTAGCTCTGTCTGTCATCCCAGGGTCTTAAATGTGTGAAACAATTAATTGAGCTTATGCCAGTCTGTCATTCATCCAAATTGACCAATAAAGCCTTTATTTATGCTAAAGGTCTTA

Publications

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