Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name SNRPFP4
Plot displaying the genomic locations of a retrocopy (in chr3) and its respective parental gene (in chr12). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr3:48161188-48161413  UCSC
Coordinates (T2T) chr3:48188347-48188572  UCSC
Coordinates (hg19) chr3:48202678-48202903  UCSC
Strand +
Parental Sequence NM_003095.4
Parental seq. overlap 196 bp
Parental seq. overlap (%) 13.8%
Genomic Region Intragenic (CDC25A)
Retrocopy Summary SNRPFP4, located on chr3:48161188-48161413, is a retrocopy of the parental gene SNRPF. 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 SNRPF
Full Name small nuclear ribonucleoprotein polypeptide F
Also known as SMF|Sm-F|snRNP-F
Coordinate chr12:95858952-95867105
Strand +
Gene summary Enables RNA binding activity. Involved in spliceosomal snRNP assembly. Located in cytosol and nucleus. Part of several cellular components, including methylosome; nucleus; and pICln-Sm protein complex. Biomarker of nasopharynx carcinoma. [provided by Alliance of Genome Resources, Apr 2022]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes SNRPFP3
Bonobo Pan paniscus SNRPFP3
Orangutan Pongo abelii SNRPFP3
Gibbon Nomascus leucogenys SNRPFP1
Green monkey Chlorocebus sabaeus SNRPFP3
Crab-eating macaque Macaca fascicularis SNRPFP3
Rhesus Macaca mulatta SNRPFP3
Baboon Papio anubis SNRPFP3
Gorilla Gorilla gorilla 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

>SNRPFP4
GAATCCCAAATCTTTCCCCAGTGGAACAACAGAAAGCCAGTGATGGCGAAACTCAAGTGGGGAACGAAGTGTAAGGGGTATCTGTAGATGGTGATATAAACATGCAGCTTGCAAATACAGAATACAGAGATGGGGCGTTTTCTGTATATCTAGGTGAAGTTTCAATATGGTATAATAATGTCCTTTATATTAGAGGTGTTAAAGAGGAAGATGGGGAAATGAGAGA
>NM_003095.4
CTGTTTGGCGGCCATTTCTCTTGAAACTGCGGCTCGGGACCTGCGGTACCTGCTGTAGTCACGAGGGACGGGCGGCGGCCTGGTCGGCAGAGAGTAGCCTGCAACATTCGGCCGTGGTTACGATGAGTTTACCCCTCAATCCCAAACCTTTCCTCAATGGACTAACAGGAAAGCCAGTGATGGTGAAACTTAAGTGGGGAATGGAGTACAAGGGCTATCTGGTATCTGTAGATGGCTACATGAACATGCAGCTTGCAAATACAGAAGAATACATAGATGGAGCTTTGTCTGGACATCTGGGTGAAGTTTTAATAAGGTGTAATAATGTCCTTTATATCAGAGGTGTGGAAGAAGAGGAAGAAGATGGGGAAATGAGAGAATAGCATCTTTTGTGGGGGATTTTTTTTATATATATTTCTAGACAATAAAGATTTGTTTGTTTTTCAACTTGACTTGTGAACTATTTGTATTCAGATATTTACAAGCAAAGCTGAAATGATGAACCAATTGGGAAAGATTACTCACTGAACTAATGCTTTAAAAGCCACTGAATTTCATTTAAGTTGCTTTTCTTTTGTAAGCCCAATATTCTTTTTTTTCCCATAAAGGATAATTATTTATATGCTTTAGATATTTTTATGAAGGTGAATTTCAGACCTTTTCTTGTAAAATTATCTATTAGCTGAGACCTTTTAAATGCAACTTTTTCTTTTAAAGTTATTTTTGAGCTACTTTTAACGTATAAAATTAAACATTTTCTTGGTATTAATAATATACTGTCTTATTTTACTTAGTAGTCAATAAATTACATGTTAATTCTGTGTCAATATAAGCTAAATGCACATATTGCAGCTAAAATTGAAGCATCTTCTAAAAATTAAAATGATTGTACAGACAGGGCACAACAGAAATTGGGAACTGACATTCAGGCTGAAGGCATACGGTTTGTTCACTGAAGAGAAAAAAGTTCTCTGAACAAAATGTAATGTCAAATAAAAACCAGTCTCCCCATTATGTTCTGAGACATAACCTCGAGGTTGAGTTTTAAGCCCCTCAAAACCCTTCAGGTATTTTAGGGTTGTACATTGTTAAAATGTATAGTCCATAGTAATAACAGTATGCTATGAACTTCCCTACAGATGGGTTGAGAAAATACATCATTTACATTCTCATGTTGTAAGAGAATGGCCATTATTACACTTCAGTGTTCATTTACCATAGTTTTATCAGTAAACTATCTTTGTGTATCCCCAAGTGGGACAACTCAAAGTATAGAAGAAAGTGTTTAGCTATATGGAATAATACTTATGATATGAATACTTAAAGACTTAAAATTTACAAAATACACCTAAGACATTCTGGTAATAAAATGTCTTACTGCTTTTATTCAAGTAAAAAAATATTCTTCCTCTTGTGA

Publications

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