Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name H3P41
Plot displaying the genomic locations of a retrocopy (in chr17) and its respective parental gene (in chr1). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr17:28416890-28417771  UCSC
Coordinates (T2T) chr17:29358743-29359624  UCSC
Coordinates (hg19) chr17:26743908-26744789  UCSC
Strand +
Parental Sequence NM_002107.7
Parental seq. overlap 617 bp
Parental seq. overlap (%) 54.2%
Genomic Region Intergenic
Retrocopy Summary H3P41, located on chr17:28416890-28417771, is a retrocopy of the parental gene H3-3A. 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 H3-3A
Full Name H3.3 histone A
Also known as BRYLIB1|H3-3B|H3.3A|H3F3|H3F3A
Coordinate chr1:226061831-226072019
Strand +
Gene summary Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. Two molecules of each of the four core histones (H2A, H2B, H3, and H4) form an octamer, around which approximately 146 bp of DNA is wrapped in repeating units, called nucleosomes. The linker histone, H1, interacts with linker DNA between nucleosomes and functions in the compaction of chromatin into higher order structures. This gene contains introns and its mRNA is polyadenylated, unlike most histone genes. The protein encoded is a replication-independent member of the histone H3 family. [provided by RefSeq, Jul 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes HIST1H3AP31
Bonobo Pan paniscus LOC100970414P23
Gorilla Gorilla gorilla LOC101132116P10
Orangutan Pongo abelii LOC100433071P27
Gibbon Nomascus leucogenys LOC100599068P22
Crab-eating macaque Macaca fascicularis H3F3AP35
Rhesus Macaca mulatta LOC699443P25
Baboon Papio anubis LOC101010649P28
Marmoset Callithrix jacchus LOC100406796P14
Green monkey Chlorocebus sabaeus Without Homology
Golden snub-nosed monkey Rhinopithecus roxellana 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

>H3P41
GAGTAAGGAGGTCTCTATACCATGGCTGATACAAAGCCAATTGCCTGAAATTGACCTGTGGTAAAGCACCCAGGGAGCTACTGACTACAAAAGCCGCTTGCAAGAGTGCGCCCTCTACTGCAGAGATGAAGAAACCCTATCCTTACAGGCTTGCCACTGTGGCACTCCGGGAACGTAGACATGCTCAGAAGTCCACCAAACCTCTGATTGCAAACTTCCCTTCCAATGTCTGGTGTGAAAAGTTGCTCAGAACTTTAAAACAGATCTGTGTTGGCCGGGCACGGTGGGCTCACGTGCCCAGAGGCACATGCACCATTACAaCAAAAAACAGATCTGTGCTTCCAGAGCGCAGCTATTGGTGTTTTGCAGGAGGGAAGTGAGGCCTGTCTGTTTGGCCTTTTGAAGACACCGAGTTGTGTGCAACCCATGCCAAACGTGTAACAACTATGCCAAAAGACATCCAGCTAACACACTGCCTACGTAGAGAACGTGCTTAAGAATTAACTATGATGGGAAACACTTCATTCCCAAAATATTTTTCTCTTCTTCCTATTACTGGTAATTCTGAATGTCAGGTTTTTTTTCCCATAGGGTCTTAAGTATATGATTGAGAGTAGAAAAATAAGGGAGAGAAATCAATTGGCCGTTTTCCCATTTTCATCTGTGTATGAGTTTTTAGTATAAATGCAGGGAGGTAAAGCATCAATGCAAGTCAGAATGTTTCAGTGAACAAGTTTTAGCAGTACAACTTTATAATAATTATAAATAAACCTGTT
>NM_002107.7
CTTTCAATTGTGTTcgcagccgccgccgcgccgccgtcgctctccaacgccagcgccgcctctcgctcgccgAGCTCCAGCCGAAGGAGAAGGGGGGTAAGTAAGGAGGTCTCTGTACCATGGCTCGTACAAAGCAGACTGCCCGCAAATCGACCGGTGGTAAAGCACCCAGGAAGCAACTGGCTACAAAAGCCGCTCGCAAGAGTGCGCCCTCTACTGGAGGGGTGAAGAAACCTCATCGTTACAGGCCTGGTACTGTGGCGCTCCGTGAAATTAGACGTTATCAGAAGTCCACTGAACTTCTGATTCGCAAACTTCCCTTCCAGCGTCTGGTGCGAGAAATTGCTCAGGACTTTAAAACAGATCTGCGCTTCCAGAGCGCAGCTATCGGTGCTTTGCAGGAGGCAAGTGAGGCCTATCTGGTTGGCCTTTTTGAAGACACCAACCTGTGTGCTATCCATGCCAAACGTGTAACAATTATGCCAAAAGACATCCAGCTAGCACGCCGCATACGTGGAGAACGTGCTTAAGAATCCACTATGATGGGAAACATTTCATTCTCaaaaaaaaaaaaaaaaaTTTCTCTTCTTCCTGTTATTGGTAGTTCTGAACGTTAGATATTTTTTTTCCATGGGGTCAAAAGGTACCTAAGTATATGATTGCGAGTGGAAAAATAGGGGACAGAAATCAGGTATTGGCAGTTTTTCCATTTTCATTTGTGTGTGAATTTTTAATATAAATGCGGAGACGTAAAGCATTAATGCAAGTTAAAATGTTTCAGTGAACAAGTTTCAGCGGTTCAACTTTATAATAATTATAAATAAACCTGTTAAATTTTTCTGGACAATGCCAGCATTTGGATTTTTTTAAAACAAGTAAATTTCTTATTGATGGCAACTAAATGGTGTTTGTAGCATTTTTATCATACAGTAGATTCCATCCATTCACTATACTTTTCTAACTGAGTTGTCCTACATGCAAGTACATGTTTTTAATGTTGTCTGTCTTCTGTGCTGTTCCTGTAAGTTTGCTATTAAAATACATTAAACTATACCTGCTTTTGGTCTTTA

Publications

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