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Pseudogene is a database of pseudogenes annotations compiled from various sources. Gene prediction Glossary of genetics Index of molecular biology articles
Pseudogene_(database)
Functionless relative of a gene
Pseudogenes are nonfunctional segments of DNA that resemble functional genes. Pseudogenes can be formed from both protein-coding genes and non-coding
Pseudogene
Process in computational biology
Protein structure prediction Protein–protein interaction prediction Pseudogene (database) Sequence mining Sequence similarity (homology) Sleator RD (August
Gene_prediction
Genus of beetles
genus Pseudogenes: Pseudogenes micheli Villiers, Quentin & Vives, 2011 Pseudogenes ornaticeps Fairmaire, 1894 "Catalogue of Life, Pseudogenes Fairmaire
Pseudogenes_(beetle)
Database of nematode genomics
They can incorrectly predict a coding gene model where the gene is a pseudogene and they predict the isoforms of a gene poorly, if at all. The gene models
WormBase
StarBase is a database for decoding miRNA-mRNA, miRNA-lncRNA, miRNA-sncRNA, miRNA-circRNA, miRNA-pseudogene, protein-lncRNA, protein-ncRNA, protein-mRNA
StarBase (biological database)
StarBase_(biological_database)
Class of enzymes
Online Mendelian Inheritance in Man (OMIM) Database. Last updated February 21, 1997 Chymosin pseudogene; CYMP prochymosin, included, in the OMIM Henschel
Chymosin
Protein-coding gene in the species Homo sapiens
chromosome 15q15; the second copy of this gene is thought to be a pseudogene. Pseudogene (database) GRCh38: Ensembl release 89: ENSG00000166762 – Ensembl, May
CatSper2
This is a compilation of databases, web portals, and servers used for cataloging microRNAs and their targets. MicroRNAs (miRNAs) represent an important
MicroRNA and microRNA target database
MicroRNA_and_microRNA_target_database
Cytokine
IFNω (IFNW1), IFNɛ (IFNE), IFNк (IFNK) and IFNβ (IFNB1), plus 11 IFN pseudogenes. Interferons bind to interferon receptors. All type I IFNs bind to a
Interferon_type_I
processes, such as cancer. Multiple classes of ncRNAs (lncRNAs, circRNAs, pseudogenes) and protein-coding mRNAs function as key ceRNAs (sponges) and to regulate
CeRNA_database
British pathologist
of Medical Sciences (FMedSci) in 1998 and an EMBO Member in 1979. Pseudogene (database) Brownlee, G. G. (1979). "The Fourteenth Colworth Medal Lecture Sequencing
George_Brownlee
Gene of the species Homo sapiens
paralog, a pseudogene, for FAM185A exists in humans. The pseudogene, known as FAM185BP (Family of sequence similarity 185, member B, pseudogene), is also
FAM185A
Pseudogene in the species Homo sapiens
functional protein is expressed, therefore BPIFB4P is referred to as a pseudogene. However, a non-functional protein does appear; it known as BASE protein
BPIFA4P
Human enzyme that hydroxylates steroids
and is encoded by the CYP21A2 gene which is located near the CYP21A1P pseudogene that has high degree of sequence similarity. This similarity makes it
21-Hydroxylase
PTEN, which is regulated by the 3' untranslated region (3'UTR) of the pseudogene PTENP1 in a DICER-dependent manner. A new mechanism has recently been
Competing_endogenous_RNA
appear to stem from the same transcription locus (i.e. gene or expressed pseudogene). Information on protein similarities, gene expression, cDNA clones, and
UniGene
Pseudogene in the species Homo sapiens
humans, great apes, and certain New World monkeys, in which it exists as a pseudogene. It catalyzes the oxidation of uric acid to 5-hydroxyisourate: Uric acid
Urate_oxidase
Human chromosome
C-4 to C-12 straight chain ACTG1P6: encoding protein Actin, gamma 1 pseudogene 6 ACTL8: Actin-like 8 ADGRL2 (1p31.1): adhesion G protein-coupled receptor
Chromosome_1
Human gene database maintained by the Weizmann Institute of Science
option is searching for all sections. Categories include Protein-coding, Pseudogenes, RNA genes Genetic Loci, Gene clusters and Uncategorized. The default
GeneCards
Complete set of nucleic acid sequences for humans
numbers of transposable elements, inserted viral DNA, non-functional pseudogenes and simple, highly repetitive sequences. Introns make up a large percentage
Human_genome
Genome research project
transcribed variants, non-coding loci with transcript evidence, and pseudogenes. GENCODE is currently progressing towards its goals in Phase 2 of the
GENCODE
Class of enzymes
basis for deficient acetaminophen glucuronidation by cats: UGT1A6 is a pseudogene, and evidence for reduced diversity of expressed hepatic UGT1A isoforms"
Glucuronosyltransferase
DNA located in mitochondria
replication and transcription were either absent or present only as pseudogenes. This is the first multicellular organism known to have this absence
Mitochondrial_DNA
Enzyme involved in the synthesis of vitamin C
O2 H2O2 O2 H2O2 Vitamin C The non-functional gulonolactone oxidase pseudogene (GULOP) was mapped to human chromosome 8p21, which corresponds to an evolutionarily
L-gulonolactone_oxidase
Online database of non-coding RNA and other RNA elements
families. The genomes of higher eukaryotes contain many ncRNA-derived pseudogenes and repeats. Distinguishing these non-functional copies from functional
Rfam
Species of bear
of the giant panda. Although the pseudogenisation (conversion into a pseudogene) of the umami taste receptor in Ailuropoda coincides with the dietary
Giant_panda
List of disabled human pseudogenes iHOP-Protein Information Database NextBio-Life Science Search Engine Entrez-Cross Database Query Search System TranscriptomeBrowser
Lists_of_human_genes
Enzyme in humans
S-methyltransferase (TPMT) is an enzyme that in humans is encoded by the TPMT gene. A pseudogene for this locus is located on chromosome 18q. Thiopurine methyltransferase
Thiopurine_methyltransferase
Biological database
annotation is currently more accurate at identifying splice variants, pseudogenes, polyadenylation features, non-coding regions and complex gene arrangements
Vertebrate Genome Annotation Project
Vertebrate_Genome_Annotation_Project
DNA that does not code for proteins
non-coding regions appear to be mostly nonfunctional, such as introns, pseudogenes, intergenic DNA, and fragments of transposons and viruses. Regions that
Non-coding_DNA
Species of bacteria, cause of plague
(2000). Jefferson T (ed.). "Vaccines for preventing plague". The Cochrane Database of Systematic Reviews. 1998 (2) CD000976. doi:10.1002/14651858.CD000976
Yersinia_pestis
Class of enzymes
L-threonine aldolase/GLY1 gene, but the human GLY1 gene is a non-processed pseudogene. BMC Genomics March 2005, 6:32. pdf Bell SC; Turner JM (1973). "Bacterial
Threonine_aldolase
Genus of flowering plants constituting the family Platanaceae
(2007-12-18). "ITS Evolution in Platanus (Platanaceae): Homoeologues, Pseudogenes and Ancient Hybridization". Annals of Botany. 101 (3): 403–419. doi:10
Platanus
Pseudogene found in humans
Glutamate dehydrogenase pseudogene 5, also known as GLUDP5, is a human gene. "Human PubMed Reference:". National Center for Biotechnology Information,
GLUDP5
Change in the heritable traits of populations
ancestral species, or other closely related species. Examples include pseudogenes, the non-functional remains of eyes in blind cave-dwelling fish, wings
Evolution
Genus of birds
(Aves: Columbidae) relationships using fresh source material reveals pseudogenes, chimeras, and a novel phylogenetic hypothesis". Molecular Phylogenetics
Gallicolumba
Protein family
Gutierrez-Diaz A, Schupp J, Smith DM (October 2024). "ProEnd: a comprehensive database for identifying HbYX motif-containing proteins across the tree of life"
AAA_proteins
Subfamily of rodents
but slow enough to avoid evolutionary noise. Of note, mitochondrial pseudogenes translocated within the nuclear genome complicate the assessment of the
Arvicolinae
Sporadic biological phenomenon at the molecular scale
might disrupt gene function. In addition, de novo integration of NUMT pseudogenes into the nuclear genome can have adverse effects. According to the endosymbiosis
Nuclear mitochondrial DNA segment
Nuclear_mitochondrial_DNA_segment
Description of the structure and function of a genome
relationship between a pseudogene and its parent gene nor the elapsed time since the event happened. Phylogeny-based method. Pseudogenes are identified by
DNA_annotation
Rod-shaped, gram-negative bacterium
removed to aid in molecular biology efficiency, removing IS elements, pseudogenes and phages, resulting in better maintenance of plasmid-encoded toxic
Escherichia_coli
Type of nucleic acid sequence
themselves in the genome as pseudogenes. SINEs however should not be mistaken as RNA pseudogenes. In general, pseudogenes are generated when processed
Short interspersed nuclear element
Short_interspersed_nuclear_element
Mammalian protein found in Homo sapiens
likely to try cannabis, but less likely to become dependent. FAAH-OUT is a pseudogene downstream of the FAAH coding region. It expresses a long non-coding RNA
Fatty-acid_amide_hydrolase_1
Origin of smell
the two genes may mutate and disable its function, rendering it as a pseudogene. Alternatively, the duplicated copy may mutate without dysfunctionality
Evolution_of_olfaction
Mammalian protein found in Homo sapiens
alternative promoter usage results in multiple transcript variants. Related pseudogenes have been identified on chromosomes 3 and 10. ALDOA is a homotetramer
Aldolase_A
Chemoreceptors expressed in cell membranes of olfactory receptor neurons
number of functional OR genes. Additionally, pseudogenes may be functional; 67% of human OR pseudogenes are expressed in the main olfactory epithelium
Olfactory_receptor
Alteration in the nucleotide sequence of a genome
within introns and in regions with no known biological function (e.g. pseudogenes, retrotransposons) are generally neutral, having no effect on phenotype
Mutation
Essential nutrient found in citrus fruits and other foods
nonfunctional in humans and other Haplorrhini primates; see Unitary pseudogenes) and the cofactor FAD+. This reaction produces 2-oxogulonolactone
Vitamin_C
Pseudogene in the species Homo sapiens
13 is a protein that is not present in humans. In humans, ABCC13 is a pseudogene. This gene is a member of the superfamily of genes encoding ATP-binding
ABCC13
Genus of hominins
Annis, S.; Kraytsberg, Y.; Markuzon, N.; et al. (2022). "Mitochondrial Pseudogenes Suggest Repeated Inter-Species Hybridization among Direct Human Ancestors"
Homo
Class of G protein-coupled receptors
and 3 pseudogenes (TAAR3, TAAR4P, TAAR7P) Chimpanzee – 3 genes and 6 pseudogenes Mouse – 15 genes and 1 pseudogene Rat – 17 genes and 2 pseudogenes Zebrafish
Trace amine-associated receptor
Trace_amine-associated_receptor
Family of songbirds
Passer) Phylogeography and Their Relative Abundance of Nuclear mtDNA Pseudogenes". Journal of Molecular Evolution. 53 (2): 144–154. Bibcode:2001JMolE
Old_World_sparrow
Mammalian protein found in Homo sapiens
receptor pseudogene to chromosome 2q35". Genomics. 14 (3): 685–91. doi:10.1016/S0888-7543(05)80169-7. PMID 1427896. "Entry in: gpDB, database of GPCRs
Interleukin_8_receptor,_beta
Social insects related to cockroaches
Sequence of the Novel Enterobacter Bacteriophage Arya with an Integrase Pseudogene, Isolated from the Gut of the Formosan Subterranean Termite". Genome Announcements
Termite
Set of all RNA molecules in one cell or a population of cells
spurious transcription or transcription of non-functional regions such as pseudogenes or virus fragments. A major goal of modern molecular biology is to determine
Transcriptome
Class of enzymes
HYAL2, HYAL3, HYAL4 and HYAL5 (also known as SPAM1 or PH-20); plus a pseudogene, HYAL6 (also known as HYALP1). The genes for HYAL1-3 are clustered in
Hyaluronidase
Class of enzymes
(January 2001). "Genomic organization of a human 5beta-reductase and its pseudogene and substrate selectivity of the expressed enzyme". Biochimica et Biophysica
5β-Reductase
Committee for human gene name standards
with the related Mouse and Rat Genomic Nomenclature Committees, other database curators, and experts for given specific gene families or sets of genes
HUGO Gene Nomenclature Committee
HUGO_Gene_Nomenclature_Committee
Research consortium investigating functional elements in human and model organism DNA
estimates from comparative genomics, that many DNA elements such as pseudogenes that are transcribed are nevertheless non-functional. Furthermore, the
ENCODE
Repeated DNA variation between individuals
cellular pathway. CaSNP, a database Comparative genomics Copy number analysis Human genome Inparanoid Molecular evolution Pseudogenes Segmental duplication
Copy_number_variation
Protein-coding gene in the species Homo sapiens
Eukaryotic translation initiation factor 5A pseudogene 1, also known as EIF5AP1, is a human gene. GRCh38: Ensembl release 89: ENSG00000253626 – Ensembl
EIF5AP1
Protein-coding gene in the species Homo sapiens
either none or one of the genes DRB3, DRB4 and DRB5. There are 5 related pseudogenes: DRB2, DRB6, DRB7, DRB8 and DRB9. Prevalence of the HLA-DRB1*10:01 allele
HLA-DRB1
Effort to determine the DNA sequence of the chimpanzee genome
inserted genes confer a selective advantage. PGM5P4. The phosphoglucomutase pseudogene of human chromosome 2. This gene is incomplete and doesn't produce a functional
Chimpanzee_genome_project
Protein-coding gene in the species Homo sapiens
gene are a cause of myopathic mitochondrial DNA depletion syndrome. A pseudogene of this gene has been found on chromosome 6. [provided by RefSeq, Jul
SUCLA2
duplications. At this time, the gene has no function and is called a pseudogene. Pseudogenes can be lost over time due to genetic mutations. Neofunctionalization
Gene_redundancy
Small non-coding ribonucleic acid molecule
Interactions between microRNAs and complementary sequences on genes and even pseudogenes that share sequence homology are thought to be a back channel of communication
MicroRNA
Protein-coding gene in the species Homo sapiens
paralogs of KIAA2013. KIAA2013 has one pseudogene found within Homo sapiens named LOC728138. The length of this pseudogene is 633 amino acid residues and it
KIAA2013
Subfamily of mammals
Natalya; Ackermann, Rebecca R.; Khrapko, Konstantin (2022). "Mitochondrial Pseudogenes Suggest Repeated Inter-Species Hybridization among Direct Human Ancestors"
Homininae
for a Giant Crayfish (Cherax quadricarinatus) With Insights Into cox1 Pseudogenes in Decapod Genomes". Frontiers in Genetics. 11 201. doi:10.3389/fgene
List of sequenced animal genomes
List_of_sequenced_animal_genomes
Protein-coding gene in the species Homo sapiens
variants encoding distinct isoforms have been identified, and a related pseudogene is present on chromosome 12. UHRF1 has five conserved domains; a ubiquitin-like
UHRF1
Cell surface proteins, part of the acquired immune system
locus is rather similar. Usual MHC contains about a hundred genes and pseudogenes, not all of which are involved in immunity. In humans, the MHC region
Major histocompatibility complex
Major_histocompatibility_complex
Human liver enzyme
The gene is located on chromosome 22q13.1. near two cytochrome P450 pseudogenes (CYP2D7P and CYP2D8P).[citation needed] Among them, CYP2D7P originated
CYP2D6
Clade of scaled reptiles
lost the ability to produce venom (but may still have lingering venom pseudogenes) or actually do produce venom in small quantities (e.g. 'toxic saliva')
Toxicofera
Protein-coding gene in the species Homo sapiens
(2004). "Human cytosolic sulfotransferase database mining: identification of seven novel genes and pseudogenes". Pharmacogenomics J. 4 (1): 54–65. doi:10
SULT1C3
Protein found in humans
CFTR gene and to the intron2/exon3 region of the apoA-II gene. A similar pseudogene is present on chromosome 20. TDP-43 has been shown to bind both DNA and
TAR_DNA-binding_protein_43
Bacterium that causes tuberculosis
function postulated for another 44%. Within the genome are also six pseudogenes.[citation needed] Fatty acid metabolism. The genome contains 250 genes
Mycobacterium_tuberculosis
Group of antimicrobial peptides
artificial human theta-defensin, retrocyclin, was created by 'fixing' the pseudogene, and it was shown to be effective against HIV and other viruses, including
Defensin
Species of bacterium
evidence of a novel bacterium. A phylogenetic analysis of 20 genes and pseudogenes, isolated to 5 conserved protein genes, was used to construct phylogenetic
Mycobacterium_lepromatosis
Genus of bacteria
such as high substitution rates, truncated genes, and the presence of pseudogenes and tandem repeats. When analyzing substitution rates between the three
Ehrlichia
Condition where cells have more than two sets of chromosomes
duplicated copies of genes to accumulate mutations and become inactive pseudogenes. In many cases, these events can be inferred only through comparing sequenced
Polyploidy
Sequence of DNA that determines traits in an organism
qualify as genes. These include obvious examples such as transcribed pseudogenes as well as less obvious examples such as junk RNA produced as noise due
Gene
Class of enzymes
(October 2002). "The human L-threonine 3-dehydrogenase gene is an expressed pseudogene". BMC Genetics. 3 18. doi:10.1186/1471-2156-3-18. PMC 131051. PMID 12361482
L-threonine_3-dehydrogenase
Mammalian protein found in Homo sapiens
IL8RB, which encodes another high affinity IL8 receptor, and IL8RBP, a pseudogene of IL8RB, form a gene cluster in a region mapped to chromosome 2q33-q36
Interleukin_8_receptor,_alpha
Small nuclear RNA component of the spliceosome
vertebrate genomes to find many copies of the U6 snRNA gene or U6-derived pseudogenes. This prevalence of "back-ups" of the U6 snRNA gene in vertebrates further
U6_spliceosomal_RNA
Signaling proteins released by host cells in response to the presence of pathogens
carry many interferon pseudogenes, including the entire nu family (IFNNΨ), an ortholog of IFNW1 (IFNWXΨ), a singular delta pseudogene (IFNDΨ), and a few
Interferon
Protein family around which DNA winds to form nucleosomes
specific features can be found in "HistoneDB 2.0 - Variants" database. Several pseudogenes have also been discovered and identified in very close sequences
Histone
Genus of bacteria
borgpetersenii serovar Hardjo is only 3.9 Mb in size with a large number of pseudogenes, gene fragments, and insertion sequences relative to the genomes of L
Leptospira
Protein-coding gene in humans
Cannizzaro LA, Leuzzi G, Huebner K, Rapp UR (April 1992). "B-raf and a B-raf pseudogene are located on 7q in man". Oncogene. 7 (4): 795–799. PMID 1565476. Davies
BRAF_(gene)
Medical condition
all of the C4B gene and 3′ regions of the CYP21A1P pseudogene. Duplications of CYP21A1P pseudogene and C4B gene are often associated with nonclassic 21-hydroxylase
Congenital adrenal hyperplasia due to 21-hydroxylase deficiency
Congenital_adrenal_hyperplasia_due_to_21-hydroxylase_deficiency
Biological system that determines the development of an organism's sex
deleterious mutations build up and functional genes are lost or become pseudogenes . Regions in which the sex chromosomes still recombine are termed pseudo-autosomal
Sex-determination_system
Dataset of protein-coding regions
contain premature stop codons, frame-shift indels, or likely polymorphic pseudogenes. Once these quality problems are identified, the CCDS collaborators report
Consensus_CDS_Project
Species of bacterium
single circular chromosome that contains 1604 protein-coding genes, 117 pseudogenes, 57 tRNA genes, and 23 other RNA genes. About 90% of the genes have homologs
Haemophilus_influenzae
All genetic material of an organism
g. Serratia symbiotica) have reduced genomes and a high fraction of pseudogenes: only ~40% of their DNA encodes proteins. Some bacteria have auxiliary
Genome
Amount of DNA contained in a genome
affects genes that have been disrupted by accumulation of mutations (pseudogenes); very little or no capability for acquiring new DNA; and considerable
Genome_size
Concept in genetics
effects coincide with the proliferation of mobile genetic elements, pseudogenes, genome rearrangements, and chromosomal deletion. This is because the
Minimal_genome
Immune system protein
PMC 8260604. PMID 34230484. "CCR5 - chemokine (C-C motif) receptor 5 (gene/pseudogene)". Genetics Home Reference. Archived from the original on 24 September
CCR5
2004 book on evolution by Richard Dawkins & Yan Wong
selection, they show greater variation between species. The same is true of pseudogenes. Coding regions are conserved sequences. Rare genomic changes are unlikely
The_Ancestor's_Tale
Protein-coding gene in the species Homo sapiens
subunit protein that belongs to the EcoL15 ribosomal protein family. A pseudogene corresponding to this gene is found on chromosome 15q. GRCh38: Ensembl
Mitochondrial ribosomal protein L15
Mitochondrial_ribosomal_protein_L15
Protein-coding gene in humans
gene is closely linked to both a related family member and a related pseudogene. GRCh38: Ensembl release 89: ENSG00000143768 – Ensembl, May 2017 GRCm38:
Left-right determination factor 2
Left-right_determination_factor_2
PSEUDOGENE DATABASE
PSEUDOGENE DATABASE
Boy/Male
Spanish
Conqueror. Note: This Database is Copyright 2000, Muse Creations Inc.
Girl/Female
German
Bright angel Note: 'This Database is Copyright Muse Creations Inc. 2000'.
Girl/Female
Native American
Power of the moon Note: 'This Database is Copyright Muse Creations Inc. 2000'.
Boy/Male
Latin
Yearning; sorrow. Abbreviation of Desiderus.Note: This Database is Copyright Dogwood Technical...
Boy/Male
English
English surnames related to Bradley: broad clearing in the wood. Note: This Database is Copyright...
Girl/Female
English
Adventurous. Note: This Database is Copyright 2000, Muse Creations Inc.
Girl/Female
Russian
crowned with laurels. Note: 'This Database is Copyright Muse Creations Inc. 2000'.
Girl/Female
English
which is a . Note: 'This Database is Copyright Muse Creations Inc. 2000'.
Biblical
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Girl/Female
Polish
Christian. Note: 'This Database is Copyright Muse Creations Inc. 2000'.
Girl/Female
German
Mighty with a spear. Note: 'This Database is Copyright Muse Creations Inc. 2000'.
PSEUDOGENE DATABASE
PSEUDOGENE DATABASE
Girl/Female
Hindu
Boy/Male
Hindu, Indian, Kannada, Tamil
God Shiva
Girl/Female
Hindu, Indian, Marathi
Divine Flowers
Surname or Lastname
English (Devon)
English (Devon) : habitational name. There is a Lidstone in Oxfordshire, but the concentration of the surname in Devon would suggest that this is not the source.
Boy/Male
Arabic, Muslim
Servant of the Glory (Allah)
Boy/Male
Sikh
Absorbed in reflection, Strong
Boy/Male
Sikh
Radiance of God
Male
English
Middle English form of Anglo-Saxon Winfrið, WINFRID means "friend of peace."
Male
Portuguese
Catalan and Portuguese form of Hebrew Yehowyaqiym, JOAQUIM means "Jehovah raises up."Â
Girl/Female
Afghan, Arabic, Gujarati, Indian, Kannada, Muslim
Successful; Victorious
PSEUDOGENE DATABASE
PSEUDOGENE DATABASE
PSEUDOGENE DATABASE
PSEUDOGENE DATABASE
PSEUDOGENE DATABASE