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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name TAF13P1
Plot displaying the genomic locations of a retrocopy (in chr6) and its respective parental gene (in chr1). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr6:87425438-87426038  UCSC
Coordinates (T2T) chr6:88634168-88634768  UCSC
Coordinates (hg19) chr6:88135156-88135756  UCSC
Strand -
Parental Sequence NM_005645.4
Parental seq. overlap 505 bp
Parental seq. overlap (%) 60.6%
Genomic Region Intragenic (CFAP206)
Retrocopy Summary TAF13P1, located on chr6:87425438-87426038, is a retrocopy of the parental gene TAF13. 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 TAF13
Full Name TATA-box binding protein associated factor 13
Also known as MRT60|TAF(II)18|TAF2K|TAFII-18|TAFII18
Coordinate chr1:109064140-109076003
Strand -
Gene summary Initiation of transcription by RNA polymerase II requires the activities of more than 70 polypeptides. The protein that coordinates these activities is transcription factor IID (TFIID), which binds to the core promoter to position the polymerase properly, serves as the scaffold for assembly of the remainder of the transcription complex, and acts as a channel for regulatory signals. TFIID is composed of the TATA-binding protein (TBP) and a group of evolutionarily conserved proteins known as TBP-associated factors or TAFs. TAFs may participate in basal transcription, serve as coactivators, function in promoter recognition or modify general transcription factors (GTFs) to facilitate complex assembly and transcription initiation. This gene encodes a small subunit associated with a subset of TFIID complexes. This subunit interacts with TBP and with two other small subunits of TFIID, TAF10 and TAF11. There is a pseudogene located on chromosome 6. [provided by RefSeq, Jul 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes TAF13P1
Bonobo Pan paniscus TAF13P1
Gorilla Gorilla gorilla TAF13P2
Orangutan Pongo abelii TAF13P1
Gibbon Nomascus leucogenys TAF13P1
Green monkey Chlorocebus sabaeus LOC103224304P1
Crab-eating macaque Macaca fascicularis LOC101866545P1
Rhesus Macaca mulatta TAF13P1
Baboon Papio anubis LOC101004473P1
Golden snub-nosed monkey Rhinopithecus roxellana LOC104655794P1
Marmoset Callithrix jacchus 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

>TAF13P1
GGGGATGCCAGAATCCTTGTACTGAGCAGGGGATATTCTTGAAGACCCTGTCATAGAGTTCATCATTGAAATGACTCACAAGGCAATGTGAATTGGAAGATGAGGTTGAGTACAAGTTTACAATATTGTTTTCTTGATTTGAAGGGACCTAAGGAAGTTTGCTAGGGTTAAAGACTTGATTACTATGAATGCAGAACTGAAATGAACTGGAAAACCATTTGACGAAGTAAACTATGGATCTTGACACCTTTTGTACTTTCTGAAACTTCATTATCGTCTGGGGGAAGTACATATATTAACTGTATATTTTCTATAGTAAGGTCCTGATAGATATCAAGCCATGTAACTGAAAGATGGAGAAACACAAAGTTTTCAGTTTTTATTTTCATGCCTTCAATTTTACGGTGATCTTTGAGCCTTTAATCGCCTGTCTTTACATAATAAGCATACTTGAAATACTTCTTGGGTTTCAATGATCACACATAATAAGTTAAAGTACCTTGTAAACCATTTATTTCCTTCTGACTTTTGACTATCTAAAGGATGAAGTAGTATTTATATGTTAGCTATATTTGTGCCATTGTAAGCTATACTGTAGCTA
>NM_005645.4
AGTGTAACCAGCTGGGAGCCAGCCGGCAGGACGCTGTGAGTTGGCGTGCTAGTGGGATGGCAGATGAGGAAGAAGACCCCACGTTTGAGGAAGAAAATGAAGAAATTGGAGGAGGTGCAGAAGGTGGACAGGGTAAAAGAAAGAGACTTTTTTCTAAAGAATTGCGATGTATGATGTATGGCTTTGGGGATGACCAGAATCCTTATACTGAGTCAGTGGATATTCTTGAAGATCTTGTCATAGAGTTTATCACTGAAATGACTCACAAGGCAATGTCAATTGGAAGACAAGGTCGAGTACAAGTTGAAGATATCGTCTTCTTGATTCGAAAGGACCCAAGGAAGTTTGCCAGGGTTAAAGACTTGCTTACTATGAATGAAGAATTGAAACGAGCTAGAAAAGCATTTGATGAAGCAAATTATGGATCTTGACACTTTTTGTAGTTTCCGAAAATTACCATCTGGGGAAACCATATATAATAATTGTATATTTTCTAAAGTAAGATTCTGATATCTAGCCATGTAAATGAAAGATGGAGAAACACAAAGTTTTCAGCCTTTATTTTTATGCCTTTGATTTTAGGGTGATATTGGTGCATGTAATTGCCTGCCTTTATATTACCATACTTGAATTACTTACTGGGTTTTAATGACCACACATAAGTCAAAGTACCTTGCAAACCATGCCGTTGTTCTGACTTTTGACTATTTAAAGGATAAAGTAGTATTTAATGTGTTAGGTATGTTTATGCCCTTGTAAGCTATACTGTAGCtttttttttttttttttttttttttgagatggagtctcacta

Publications

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