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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name NENFP3
Plot displaying the genomic locations of a retrocopy (in chr5) and its respective parental gene (in chr1). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr5:13553751-13553960  UCSC
Coordinates (T2T) chr5:13490585-13490794  UCSC
Coordinates (hg19) chr5:13553860-13554069  UCSC
Strand -
Parental Sequence NM_013349.5
Parental seq. overlap 172 bp
Parental seq. overlap (%) 18.7%
Genomic Region Intergenic
Retrocopy Summary NENFP3, located on chr5:13553751-13553960, is a retrocopy of the parental gene NENF. 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 NENF
Full Name neudesin neurotrophic factor
Also known as CIR2|SCIRP10|SPUF
Coordinate chr1:212432920-212446379
Strand +
Gene summary This gene encodes a neurotrophic factor that may play a role in neuron differentiation and development. A pseudogene of this gene is found on chromosome 12. Alternate splicing of this gene results in multiple transcript variants. [provided by RefSeq, Jan 2009]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes NENFP2
Bonobo Pan paniscus NENFP2
Gorilla Gorilla gorilla NENFP3
Orangutan Pongo abelii NENFP2
Crab-eating macaque Macaca fascicularis NENFP2
Rhesus Macaca mulatta NENFP2
Baboon Papio anubis NENFP2
Gibbon Nomascus leucogenys Without Homology
Green monkey Chlorocebus sabaeus Without Homology
Golden snub-nosed monkey Rhinopithecus roxellana 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

Related Sequence

>NENFP3
GTGGTGTTTGCTGTCACTTTGGGAAAGGGGTTTCAAGGAAGAGGAGCCCCCTTACAATGCCTTGACCTGGAAAACCTCCACCACAGGGATAGCCTAAGAAGTCCTTGGTTCCTGCAAAACTCACCCATGACTCTATGGGTTACTAGGCTGAGGAGCTGGAGTCCTCAGGATGAGGTCTTCACCAAAATGTACAAAGCAAAATATCCCATT
>NM_013349.5
cttgccttgcgctgcgcgctcaccatggtgggccccgcgccgcggcggcggctgcggccgctggcagcgctggccctggtcctggcgctggccccggggctgcccacagcccgggccGGGCAGACACCGCGCCCTGCCGAGCGGGGGCCCCCAGTGCGGCTTTTCACCGAGGAGGAGCTGGCCCGCTATGGCGGGGAGGAGGAAGATCAGCCCATCTACTTGGCAGTGAAGGGAGTGGTGTTTGATGTCACCTCCGGAAAGGAGTTTTATGGACGAGGAGCCCCCTACAATGCCTTGACGGGGAAGGACTCCACTAGAGGGGTAGCCAAGATGTCCTTGGATCCTGCAGACCTCACCCATGACACTACGGGTCTCACGGCCAAGGAACTGGAGGCCCTGGATGAGGTCTTCACCAAAGTGTACAAAGCCAAATACCCCATCGTCGGCTACACTGCCCGGAGAATTCTCAATGAGGATGGCAGCCCTAACCTGGACTTCAAGCCTGAAGACCAGCCCCATTTTGACATCAAGGATGAGTTCTGATGTTCCCCCTGCAGGAGCAGGTTCTTGGGAGCGTGAGGCAGGAAGACACTAGGTGCTGAATCTCCTGCAAAACTGGCTGCCTGGAGGCCCTGAGCCACCCAGATCTGAATAAAACAGATGCTTACCCTGGAAGAGCAAATGCCTCCTGTTGTCCTTGGTCAGGGGTTCTGTCTACCTGGGGACCCCTGTCTGCACACCAGGGATCAATAAGAGCCAAAGTGGGACACCTCCTAGATGTCAGTATCAGCTGGctgggcagtggaattttgagcgacctttactttatacttttctgtgcttgacagattttcagccatgaccatgttcactttataatcaaaacaaaaataaaggtcccatttttacaaaaGGA

Publications

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