Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name HMGA1P5
Plot displaying the genomic locations of a retrocopy (in chr10) and its respective parental gene (in chr6). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr10:75276375-75276726  UCSC
Coordinates (T2T) chr10:76149893-76150244  UCSC
Coordinates (hg19) chr10:77036133-77036484  UCSC
Strand -
Parental Sequence NM_145902.3
Parental seq. overlap 304 bp
Parental seq. overlap (%) 14.3%
Genomic Region Intergenic
Retrocopy Summary HMGA1P5, located on chr10:75276375-75276726, is a retrocopy of the parental gene HMGA1. 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 HMGA1
Full Name high mobility group AT-hook 1
Also known as HMG-R|HMGA1A|HMGIY
Coordinate chr6:34236873-34246231
Strand +
Gene summary This gene encodes a chromatin-associated protein involved in the regulation of gene transcription, integration of retroviruses into chromosomes, and the metastatic progression of cancer cells. The encoded protein preferentially binds to the minor groove of AT-rich regions in double-stranded DNA. Multiple transcript variants encoding different isoforms have been found for this gene. Pseudogenes of this gene have been identified on multiple chromosomes. [provided by RefSeq, Jan 2016]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes HMGA1P3
Bonobo Pan paniscus HMGA1P3
Gorilla Gorilla gorilla HMGA1P4
Orangutan Pongo abelii HMGA1P5
Gibbon Nomascus leucogenys HMGA1P5
Green monkey Chlorocebus sabaeus HMGA1P3
Crab-eating macaque Macaca fascicularis HMGA1P3
Rhesus Macaca mulatta HMGA1P4
Baboon Papio anubis HMGA1P3
Golden snub-nosed monkey Rhinopithecus roxellana HMGA1P5
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

>HMGA1P5
CCCGCAGCGCGCACCGCAGGGAGGTCAGAGCTGGCGCATTCCCGCCACCACTCTTCCACCTGCTCGGTGGAGAAGGGCAGATGAGAGGGTCCAGGTCGAAATCTAGCCGGCCGTGGGCCTCCAACCAGGAAAAGGACTACACTGAGCAGTGGGGGCAGGGCAGGCCGCAGGCAGCCTCCGTAGGAGCCCGGCCAACACCTGGGAGACCCGGGGCCACCAAAGGGCAACAAAATCAGGGGCGCTGCTGACACCCGGAAACCCACCACAACTCCAGGAAGGAAACCAAGGGGCCGACCCAAAAAACCGGGAAGGAGGGAGAGGAGGGCATCGGAGTGCTCAGAGGAGGAGCAGC
>NM_145902.3
CTTTTTAAGCTCCCCTGAGCCGGTGCTGCGCTCCTCTAATTGGGACTCCGAGCCGGGGCTATTTCTGGCGCTGGCGCGGCTCCAAGAAGGCGTGAGTTCGCGGCCGCTCCGGTGGCTTCTTTTTTTTATATCTATAATTTAATTAAATTATTTATTTATTGAGGCCGCGCACGGGCCGTGCCCAGCTTCCTGCCCCTCGCCATCCTTCGGGGGAGGGGGAATATTTTTGTCCCCCCGCCTGGCTGTGACACATAAATACCCCgcgggggcctgggcggcgagcacgcggcggcggcggTCTCTGAGCGCCTCTGCTCTCTCCCGGTTTCAGATCCGCATTTGCTACCAGCGGCGGCCGCGGCGGAGCCAGGCCGGTCCTCAGCGCCCAGCACCGCCGCTCCCGGCAACCCGGAGCGCGCACCGCAGGCCGGCGGCCGAGCTCGCGCATCCCAGCCATCACTCTTCCACCTGCTCCTTAGAGAAGGGAAGATGAGTGAGTCGAGCTCGAAGTCCAGCCAGCCCTTGGCCTCCAAGCAGGAAAAGGACGGCACTGAGAAGCGGGGCCGGGGCAGGCCGCGCAAGCAGCCTCCGAAGGAGCCCAGCGAAGTGCCAACACCTAAGAGACCTCGGGGCCGACCAAAGGGAAGCAAAAACAAGGGTGCTGCCAAGACCCGGAAAACCACCACAACTCCAGGAAGGAAACCAAGGGGCAGACCCAAAAAACTGGAGAAGGAGGAAGAGGAGGGCATCTCGCAGGAGTCCTCGGAGGAGGAGCAGTGACCCATGCGTGCCGCCTGCTCCTCACTGGAGGAGCAGCTTCCTTCTGGGACTGGACAGCTTTGCTCCGCTCCCACCGCCCCCACCCCTTCCCCAGGCCCACCATCACCACCGCCTCTGGCCGCCACCCCCATCTTCCACCTGTGCCCTCACCACCACACTACACAGCACACCAGCCGCTGCAGGGCTCCCATGGGCTGAGTGGGGAGCAGTTTTCCCCTGGCCTCAGTTCCCAGCTCCCCCCGCCCACCCACGCATACACACATGCCCTCCTGGACAAGGCTAACATCCCACTTAGCCGCACCCTGCACCTGCTGCGTCCCCACTCCCTTGGTGGTGGGGACATTGCTCTCTGGGCTTTTGGTTTGGGGGCGCCCTCTCTGCTCCTTCACTGTTCCCTCTGGCTTCCCATAGTGGGGCCTGGGAGGGTTCCCCTGGCCTTAAAAGGGGCCCAAGCCCCATCTCATCCTGGCACGCCCTACTCCACTGCCCTGGCAGCAGCAGGTGTGGCCAATGGAGGGGGGTGCTGGCCCCCAGGATTCCCCCAGCCAAACTGTCTTTGTCACCACGTGGGGCTCACTTTTCATCCTTCCCCAACTTCCCTAGTCCCCGTACTAGGTTGGACAGCCCCCTTCGGTTACAGGAAGGCAGGAGGGGTGAGTCCCCTACTCCCTCTTCACTGTGGCCACAGCCCCCTTGCCCTCCGCCTGGGATCTGAGTACATATTGTGGTGATGGAGATGCAGTCACTTATTGTCCAGGTGAGGCCCAAGAGCCCTGTGGCCGCCACCTGAGGTGGGCTGGGGCTGCTCCCCTAACCCTACTTTGCTTCCGCCACTCAGCCATTTCCCCCTCCTCAGATGGGGCACCAATAACAAGGAGCTCACCCTGCCCGCTCCCAACCCCCCTCCTGCTCCTCCCTGCCCCCCAAGGTTCTGGTTCCATTTTTCCTCTGTTCACAAACTACCTCTGGACAGTTGTGTTGTTTTTTGTTCAATGTTCCATTCTTCGACATCCGTCATTGCTGCTGCTACCAGCGCCAAATGTTCATCCTCATTGCCTCCTGTTCTGCCCACGATCCCCTCCCCCAAGATACTCTTTGTGGGGAAGAGGGGCTGGGGCATGGCAGGCTGGGTGACCGACTACCCCAGTCCCAGGGAAGGTGGGGCCCTGCCCCTAGGATGCTGCAGCAGAGTGAGCAAGGGGGCCCAAATCGACCATAAAGGGTGTAGGGGCCACCTCCTCCCCCTGTTCTGTTGGGGAGGGGTAGCCATGATTTGTCCCAGCCTGGGGCTCCCTCTCTGGTTTCCTATTTGCAGTTACTTGAATAAAAAAAATATCCTTTTCTGGA

Publications

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