Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name H3C13
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) chr1:149813292-149813681  UCSC
Coordinates (T2T) chr1:148937427-148937816  UCSC
Coordinates (hg19) chr1:149784847-149785236  UCSC
Strand -
Parental Sequence NM_005324.5
Parental seq. overlap 319 bp
Parental seq. overlap (%) 11.8%
Genomic Region Intergenic
Retrocopy Summary H3C13, located on chr1:149813292-149813681, is a retrocopy of the parental gene H3-3B. 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 H3-3B
Full Name H3.3 histone B
Also known as BRYLIB2|H3-3A|H3.3B|H3F3B
Coordinate chr17:75776434-75779779
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 by this gene is a replication-independent histone that is a member of the histone H3 family. Pseudogenes of this gene have been identified on the X chromosome, and on chromosomes 5, 13 and 17. [provided by RefSeq, Oct 2015]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes H3F3BP1
Bonobo Pan paniscus LOC100988671P1
Gorilla Gorilla gorilla LOC101140122P1
Crab-eating macaque Macaca fascicularis H3F3BP1
Baboon Papio anubis LOC101010649P1
Mouse lemur Microcebus murinus LOC105863814P3
Sheep Ovis aries LOC101108931P1
Dog Canis familiaris H3-3BP4
Panda Ailuropoda melanoleuca LOC100476918P5
Cat Felis catus H3F3AP9
Greater horseshoe bat Rhinolophus ferrumequinum H3F3BP5
Orangutan Pongo abelii Without Homology
Gibbon Nomascus leucogenys Without Homology
Green monkey Chlorocebus sabaeus Without Homology
Rhesus Macaca mulatta Without Homology
Golden snub-nosed monkey Rhinopithecus roxellana Without Homology
Marmoset Callithrix jacchus 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
Dolphin Tursiops truncatus Without Homology
Horse Equus caballus 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
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

>H3C13
ATGGCCCGTACTAAGCAGACTGCCCGCAAGTCGACCGGCGGCAAGGCCCCGAGGAAGCAGCTGGCTACCAAAGCGGCCCGCAAGAGCGCGCCGGCCACGGGCGGGGTGAAGAAGCCGCACCGCTACCGGCCCGGCACCGTGGCTCTGCGGGAGATCCGGCGCTACCAGAAGTCTACGGAGCTGCTGATCCGCAAGCTGCCCTTCCAGCGGCTGGTACGCGAGATCGCGCAGGACTTTAAGACGGACCTGCGCTTCCAGAGCTCGGCCGTGATGGCGCTGCAGGAGGCCAGCGAGGCCTACCTGGTGGGGCTGTTCGAAGACACGAACCTGTGCGCCATCCATGCCAAGCGCGTGACCATCATGCCCAAGGACATCCAGTTGGCCCGCCGC
>NM_005324.5
GAGCGCAGAGCGGTTTGGTCGTTCGTTGGGCGGTGCTGGTTTTTCGCTCGTCGACTGCGGCTCTTCCTCGGGCAGCGGAAGCGGCGCGGCGGTCGGAGAAGTGGCCTAAAACTTCGGCGTTGGGTGAAAGAAAATGGCCCGAACCAAGCAGACTGCTCGTAAGTCCACCGGTGGGAAAGCCCCCCGCAAACAGCTGGCCACGAAAGCCGCCAGGAAAAGCGCTCCCTCTACCGGCGGGGTGAAGAAGCCTCATCGCTACAGGCCCGGGACCGTGGCGCTTCGAGAGATTCGTCGTTATCAGAAGTCGACCGAGCTGCTCATCCGGAAGCTGCCCTTCCAGAGGTTGGTGAGGGAGATCGCGCAGGATTTCAAAACCGACCTGAGGTTTCAGAGCGCAGCCATCGGTGCGCTGCAGGAGGCTAGCGAAGCGTACCTGGTGGGTCTGTTCGAAGATACCAACCTGTGTGCCATCCACGCTAAGAGAGTCACCATCATGCCCAAAGACATCCAGTTGGCTCGCCGGATACGGGGAGAGAGAGCTTAAGTGAAGGCAGTTTTTATGGCGTTTTGTAGTAAATTCTGTAAAATACTTTGGTTTAATTTGTGACTTTTTTTGTAAGAAATTGTTTATAATATGTTGCATTTGTACTTAAGTCATTCCATCTTTCACTCAGGATGAATGCGAAAAGTGACTGTTCACAGACCTCAGTGATGTGAGCACTGTTGCTCAGGAGTGACAAGTTGCTAATATGCAGAAGGGATGGGTGATACTTCTTGCTTCTCATGATGCATGTTTCTGTATGTTAATGACTTGTTGGGTAGCTATTAAGGTACTAGAGTTGATAAATGTGTACAGGGTCCTTTTGCAATAAAACTGGTTATGACTTGATCCAAGTGTTTAACAATTGGGGCTGTTAAGTCTGACCATACATCACTGTGATAGAATGTGGGCTTTTTCAAGGGTGAAGATACAAGTCTTAACCACAGTGTAACTTACAGTTTCCTTTAAAAAAAAAAAAAGTAAACCTGGCAGCTATAGAATACACTATGTGCATTTATAATAGCTATTTTATATATTGTAGTATCAACATTTTTAAATTAAATGTTTTACATTCACAAGTGGTGGGGAGTCTTGTCATTAAGGTGTGTGTAATTTAGAGTCCAGTTGGTTTTCTTCTGACTGCACTTGTTCTCATAGTAGTAAAATGCTATGCGCATTTATACCTTGCATAAGTCCTCATTCTACCACATGTTAACCCTCTAGCTGATAATGCAAACACTAACTGGGGGATTTTATTTATAAGGGCTCTAGAAAAAACGAGTTATTCACACCAGCATCATCTTAACTAACATTCTGAACTAGTTAGTGCAGCTTTTCATTGTGTTGTGTGGTTGGTCTCATAACTAGGTTGAGTTTTTCTCCTCTGCTGAGGAAACAGTACCGAAGTTCTTTTTCTTGTGGCATTTGTATTATAAAAACTTGGTGTGGGGGAGGAGCACAAAACTCCAGCCCACTGAACCTCTGCCAATTAAGATGGTGTTGGGTTAGGTTACATCTGGTTACTGTCCTGGGAAAATCATTTTTATAGAGATGGCCTTCCAAGTGGTTTTAAAATTTACTGAAGTTTTTAGGTCAATTATGTATGTTGACTAAATTTACAAATAAACTTGTTTATCCAACTAAGTGTCCAAAACCTAAATTGAATGTACTAAGTTTTCACATGTCCCATTATCTAGGTCCTTGTATACTAATGTTTTGAACTTAGATCATTTCAGGTGTTGTTTGGTGGATAAAGGAACCTTTTATTTATAAAGATACTGTAGAAAGCATGTGAACAGCTCTCTGCTTGATTAAGATGCCATAATAGTGCTGTATTTGCAGTGTGGGCTAAGACAAAGTATATTAATAAGCTTTTCAGCCCCCCCACTCCCGTTCCGTAGTGTAGAAGCCCACAGGTGTAGAACTCAGTCTTAAACTTCAGTATGAAACCAGTTTCCTTGTGCGATGATGGCCACTAAAGCATAGTACGTGGATGTCAGTGAGACAGCATGAGAGCCAGCAGTCATCAAAGCGTTCCACGTTTGAAGTTAGCAACTGCTTAAAGTTATACCCCATTAAAATTGCTTTCTCAAAAGTTTGGGTTAGTTTCAAATGTGATATTTTGGAGGGAAGGTAAAGTAGGTATCTTTCAGGTCGTGATAATGAGCTCCTATGAAAGGATGCAATATAATGACCCGCTTTTCTAGAAAGTTCATAATCAGCTCTGGAACAAGCACACTTGATTCCTCACTGTGCTTCAGAATGAGATTAAGATCAGATGTTGGAACGTGCTATGCTGTAGCGTGTCTGGAAACAAAGTACACAAACCTGGCTACGGTGATGAGTTAGCTTCTGCTTACTACCTGTGACAACCCAAGTGGGTGACACTAGTGAACCTTCTCCAGTCTGCAGGCTGGCATAGAAGGCTCTTAGATTATATTGGGCAGCTTGCAATCTGCCGAAGCAGTGACTTGCATTTCCACACTTGGCTTGAGCACTCAACCCAGAAGGCGAAGATAGCTTTTGGTTGTAGGCGGCTTCCTGTATGGGATATCCCTCGGTAAGGGTAAAGGAGCAGAGGCAAAGGAGAAAAGCAGAAGTTGCAGCTGATGCAGGTATCCTATGCCCTTGATGGATGAGACTAAAATAAAATTTTTGAAGTTAA

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