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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name ILF2P1
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Plot displaying the genomic locations of a retrocopy (in chr3) and its respective parental gene (in chr1). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr3:65687290-65688508  UCSC
Coordinates (T2T) chr3:65730935-65732153  UCSC
Coordinates (hg19) chr3:65672965-65674183  UCSC
Strand +
Parental Sequence NM_004515.4
Parental seq. overlap 1038 bp
Parental seq. overlap (%) 55.7%
Genomic Region Intragenic (CNKSR3)
Intragenic (MAGI1)
Retrocopy Summary ILF2P1, located on chr3:65687290-65688508, is a retrocopy of the parental gene ILF2. 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 ILF2
Full Name interleukin enhancer binding factor 2
Also known as NF45|PRO3063
Coordinate chr1:153661788-153670993
Strand -
Gene summary The protein encoded by this gene is a transcription factor required for T-cell expression of the interleukin 2 gene. It also binds RNA and is an essential component for encapsidation and protein priming of hepatitis B viral polymerase. The encoded 45 kDa protein (NF45, ILF2) forms a complex with the 90 kDa interleukin enhancer-binding factor 3 (NF90, ILF3), and this complex has been shown to affect the redistribution of nuclear mRNA to the cytoplasm, to repair DNA breaks by nonhomologous end joining, and to negatively regulate the microRNA processing pathway. Knockdown of NF45 or NF90 protein retards cell growth, possibly by inhibition of mRNA stabilization. Alternative splicing results in multiple transcript variants. Related pseudogenes have been found on chromosomes 3 and 14. [provided by RefSeq, Dec 2014]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes ILF2P1
Bonobo Pan paniscus ILF2P1
Orangutan Pongo abelii ILF2P2
Gibbon Nomascus leucogenys ILF2P2
Green monkey Chlorocebus sabaeus ILF2P2
Crab-eating macaque Macaca fascicularis ILF2P1
Rhesus Macaca mulatta LOC707106P1
Baboon Papio anubis LOC116270507P1
Golden snub-nosed monkey Rhinopithecus roxellana ILF2P1
Gorilla Gorilla gorilla Without Homology
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

The Genotype-Tissue Expression project - (GTEx)

Massive Mining of Publicly Available RNA-seq Data from Human and Mouse - (ARCHS4)

Related Sequence

>ILF2P1
ATTTAAGGCACCACGAAGAGTGACAAAGGTCATGGTTGTGGTGGACACTTGGGCTCCAAAAGAGGCTCAGGAGGAGAGTTCAGGCCCTTTGTACCACATATCCCGTTTGATTTCTATTTGTGTGAAATGGCCCTCCCCTGGGTCAAGCCAACACCTGATGCAACTTCCTTCAGTGAGGCCTTCCTGAAGAGCAATCAGGACCCAGCTCCTGATTCTGCTGAGCAGGCCTCTTACTTTTCCCTGGTGACAAAAATAAACAATGTGATTGACAATCTGTGGCTCCAGGGACATCTGAAGTGCAAATTGAAGAAGTTGGATAGGTGGGATCCTATAAAAAGAGAATGGTCACTACAGGCCACAGTGCAGCTGCCCCGCTGGTAATACACAAGATTCTGCCAAGGCTGGAAGCTGTTGCTGCCCTGGGAAACAAAGTCGGGGGAAGCCTGAGAGCACAGGATCCTTCTGAAGTTTTGACCATGCCTACCATGCTGACGAAACTGGCTTGGAAATCAGTTCTTCTGATGCTACAGTGAAGACTGTCATTACAACAGTGCCACCCAGTCTTCCAAAACTGGACCCAGAACTCCGTTTGGATATCAAGGTATTGCAGGGTGCCTTAGCAGCCATTCGGCATGCCCGCTGGTTCAAGGAAAATGGCTCTCAGTTCACAGTTAAAGTTATCATCAGACTACTGAAGGACTTGAGGGTTTCGTTTTCCTGGCTTTGAGCCCCTCACACCCTGGATCCTAGGCCTACTAAGTCATTATGCTGTGATAACCCCAACAGACAGCCTTTGGCCCTGAACACTGCACATAGGTGTTGCTTGCAGATTCTAGGTGCAGGACTGTTCCTGCCAGGGTCCATGGGTATCACTGACCCCCGTGAGAGCGGCAACTTCAGAGTACACACAGTCATGACCCTAGAACAGCAGGACATAGTCTGCTACACAGCCCAGACTCTGGTCTGAATCCTCTCACATGGTGGCTTTAGGAAGATCCTTGGCCAGGAGGGTGATGCCAGACATCTTACTTCTGAAATATCTACCTGGGATGGAGTGATAGTAACACCTTCAGAAAAGGCTTACAGTAGTCATTAGaAGCATGGAAACTCAAAAGTGACCTTCCCTTCACTCCCTTTCCTACCCAAGGGGGAAGACTG
>NM_004515.4
CTCTTCAGTTGTCTGCTACTCAGAGGAAGGGGCGGTTGGTGCGGCCTCCATTGTTCGTGTTTTAAGGCGCCATGAGGGGTGACAGAGGCCGTGGTCGTGGTGGGCGCTTTGGTTCCAGAGGAGGCCCAGGAGGAGGGTTCAGGCCCTTTGTACCACATATCCCATTTGACTTCTATTTGTGTGAAATGGCCTTTCCCCGGGTCAAGCCAGCACCTGATGAAACTTCCTTCAGTGAGGCCTTGCTGAAGAGGAATCAGGACCTGGCTCCCAATTCTGCTGAACAGGCATCTATCCTTTCTCTGGTGACAAAAATAAACAATGTGATTGATAATCTGATTGTGGCTCCAGGGACATTTGAAGTGCAAATTGAAGAAGTTCGACAGGTGGGATCCTATAAAAAGGGGACAATGACTACAGGACACAATGTGGCTGACCTGGTGGTGATACTCAAGATTCTGCCAACGTTGGAAGCTGTTGCTGCCCTGGGGAACAAAGTCGTGGAAAGCCTAAGAGCACAGGATCCTTCTGAAGTTTTAACCATGCTGACCAACGAAACTGGCTTTGAAATCAGTTCTTCTGATGCTACAGTGAAGATTCTCATTACAACAGTGCCACCCAATCTTCGAAAACTGGATCCAGAACTCCATTTGGATATCAAAGTATTGCAGAGTGCCTTAGCAGCCATCCGACATGCCCGCTGGTTCGAGGAAAATGCTTCTCAGTCCACAGTTAAAGTTCTCATCAGACTACTGAAGGACTTGAGGATTCGTTTTCCTGGCTTTGAGCCCCTCACACCCTGGATCCTTGACCTACTAGGCCATTATGCTGTGATGAACAACCCCACCAGACAGCCTTTGGCCCTAAACGTTGCATACAGGCGCTGCTTGCAGATTCTGGCTGCAGGACTGTTCCTGCCAGGTTCAGTGGGTATCACTGACCCCTGTGAGAGTGGCAACTTTAGAGTACACACAGTCATGACCCTAGAACAGCAGGACATGGTCTGCTATACAGCTCAGACTCTCGTCCGAATCCTCTCACATGGTGGCTTTAGGAAGATCCTTGGCCAGGAGGGTGATGCCAGCTATCTTGCTTCTGAAATATCTACCTGGGATGGAGTGATAGTAACACCTTCAGAAAAGGCTTATGAGAAGCCACCAGagaagaaggaaggagaggaagaagaggagaatacagaagaaccacctcaaggagaggaagaagaaAGCATGGAAACTCAGGAGTGACATTCCCTTCACTCCTTTTCCTACCCAAGGGGGAAGACTGGAGCCTAAGCTGCCTGCTACTGGGCTTTACATGGTGACAGACATTTCCGTGGGATAGGGAAGATAGCAGGAAGAAAAGTAAACTCCATAGAAGTGTCATTCCACTGGGTTTTGATATTGGCTTAGCTGCCAGTCTCCCATTTGTGACCTATGCCATCCATCTATAATGGAGGATACCAACATTTCTTCCTAATATTCTATAATCTCCAACTCCTGAAAACCCCTCTCTCAACTAATACTTTGCTGTTGAAATGTTGTGAAATGTTAAGTGTCTGGAAATTTTTTTTTCTAAGAAAAACTATTAAAGTACTTCCTAGTAGGgctcttggtctttctggttggtgttttttgtttgtttgtttttttgcatgtggcaaccttttttgcttttggctttgtgTACTCTTTTGTTGAAAATGATAATTGAGTCATTTAATTATAAATACTCAGATCACAATTTGAAGCTGTCTTTGAATTAAAGGACAAACTCCTGGAACCTTTCCATATACCAGAGTAAACTAGAATATCATTTTAAGTATTTATTGAATAAAATGATTCTATCAACACTG

Publications

PMID - Link Title
No publications available for this retrocopy