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Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name PFN1P12
Plot displaying the genomic locations of a retrocopy (in chr1) and its respective parental gene (in chr17). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr1:143620060-143620767  UCSC
Coordinates (T2T) chr1:142692192-142692899  UCSC
Coordinates (hg19) chr1:149114721-149115428  UCSC
Strand +
Parental Sequence NM_005022.4
Parental seq. overlap 597 bp
Parental seq. overlap (%) 73.2%
Genomic Region Intergenic
Retrocopy Summary PFN1P12, located on chr1:143620060-143620767, is a retrocopy of the parental gene PFN1. 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 PFN1
Full Name profilin 1
Also known as ALS18
Coordinate chr17:4945652-4948530
Strand -
Gene summary This gene encodes a member of the profilin family of small actin-binding proteins. The encoded protein plays an important role in actin dynamics by regulating actin polymerization in response to extracellular signals. Deletion of this gene is associated with Miller-Dieker syndrome, and the encoded protein may also play a role in Huntington disease. Multiple pseudogenes of this gene are located on chromosome 1. [provided by RefSeq, Jul 2012]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes PFN1P4
Bonobo Pan paniscus PFN1P3
Orangutan Pongo abelii PFN1P1
Gibbon Nomascus leucogenys PFN1P4
Green monkey Chlorocebus sabaeus PFN1P3
Crab-eating macaque Macaca fascicularis PFN1P2
Golden snub-nosed monkey Rhinopithecus roxellana PFN1P5
Gorilla Gorilla gorilla Without Homology
Rhesus Macaca mulatta Without Homology
Baboon Papio anubis 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

>PFN1P12
GGCGGCCCCAGCAGCAGTGACCAGAGGAGCCCCTGCAGCAACGCAATGGCCAGGTGGATGCCTCCATCTACAGCCCTGTGGCGGATGGGACCTGTTAGGACATCACCATCATGGGCAACAAGGACTTGAACTGGGCTGCCATCTCAGGGAAAACCTTCGCCAACATCACCCCAGCTGAGGTTGGTGTCCTGTTTGGCAAAGACTTGTCAAGCTTTTTCGTGAATGGGCTGACACTTGGGGGCCAGAAATATACTGTTGTCCCGGACTCACTGCTGCAGGATGGGGAATTGACCGTGGATCATCATATGAAGAGCATCAGTGGAGCCCCACCTTCAGTGTCACTATCACCATGACTGCCAAGACGCCAGGCCTGCTGATGGGCAAAGAAGGAGTCCACGGTAGTTTCACCATTTCATAACAAAGGAATGTTATGAAATGGCCTCCCACCTTCAGCGTTCCCAATACTGACCTCCTTTGTTCCTTCCCCTCCACTGCTTCCCACAGCTTTGCCCCACTTTCCTTCTCATACATACACCATTTTAATTTCAGGGACCATTACTCCACACACCTTATTGCTGCCAAAACAACATGGGCTGGGGGCCAGGGATAGATGGACAGACACCTTCCCCTACCTATACCCCTCTTGTGTGTGGTTGGAAAACTTTTTTCTTTTGAGGAATTTTTTAGGAATAAAAAAGATTCTACTAA
>NM_005022.4
ACAGCGAGCGGAGCCGCGGTCCGGACGGCAGCGCGTGCCCCGAGCTCTCCGCCTCCCCCCGCCCGCCAGCCGAGGCAGCTCGAGCCCAGTCCGCGGCCCcagcagcagcgccgagagcagccccagtagcagcGCCATGGCCGGGTGGAACGCCTACATCGACAACCTCATGGCGGACGGGACCTGTCAGGACGCGGCCATCGTGGGCTACAAGGACTCGCCCTCCGTCTGGGCCGCCGTCCCCGGGAAAACGTTCGTCAACATCACGCCAGCTGAGGTGGGTGTCCTGGTTGGCAAAGACCGGTCAAGTTTTTACGTGAATGGGCTGACACTTGGGGGCCAGAAATGTTCGGTGATCCGGGACTCACTGCTGCAGGATGGGGAATTTAGCATGGATCTTCGTACCAAGAGCACCGGTGGGGCCCCCACCTTCAATGTCACTGTCACCAAGACTGACAAGACGCTAGTCCTGCTGATGGGCAAAGAAGGTGTCCACGGTGGTTTGATCAACAAGAAATGTTATGAAATGGCCTCCCACCTTCGGCGTTCCCAGTACTGACCTCGTCTGTCCCTTCCCCTTCACCGCTCCCCACAGCTTTGCACCCCTTTCCTCCCCATACACACACAAACCATTTTATTTTTTGGGCCATTACCCCATACCCCTTATTGCTGCCAAAACCACATGGGCTGGGGGCCAGGGCTGGATGGACAGACACCTCCCCCTACCCATATCCCTCCCGTGTGTGGTTGGAAAACTTTTGTTTTTTGGGGTTTTTTTTTTCTGAATAAAAAAGATTCTACTAACAA

Publications

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