Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name HMGB1P12
Plot displaying the genomic locations of a retrocopy (in chrX) and its respective parental gene (in chr13). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chrX:111434330-111436524  UCSC
Coordinates (T2T) chrX:109882545-109884739  UCSC
Coordinates (hg19) chrX:110677558-110679752  UCSC
Strand +
Parental Sequence NM_002128.7
Parental seq. overlap 1865 bp
Parental seq. overlap (%) 34%
Genomic Region Intergenic
Retrocopy Summary HMGB1P12, located on chrX:111434330-111436524, is a retrocopy of the parental gene HMGB1. 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 HMGB1
Full Name high mobility group box 1
Also known as HMG-1|HMG1|HMG3|SBP-1
Coordinate chr13:30456704-30617597
Strand -
Gene summary This gene encodes a protein that belongs to the High Mobility Group-box superfamily. The encoded non-histone, nuclear DNA-binding protein regulates transcription, and is involved in organization of DNA. This protein plays a role in several cellular processes, including inflammation, cell differentiation and tumor cell migration. Multiple pseudogenes of this gene have been identified. Alternative splicing results in multiple transcript variants that encode the same protein. [provided by RefSeq, Sep 2015]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes HMGB1P47
Bonobo Pan paniscus HMGB1P50
Gorilla Gorilla gorilla HMGB1P45
Orangutan Pongo abelii HMGB1P46
Gibbon Nomascus leucogenys HMGB1P46
Green monkey Chlorocebus sabaeus LOC103214542P38
Crab-eating macaque Macaca fascicularis HMGB1P42
Rhesus Macaca mulatta HMGB1P43
Baboon Papio anubis HMGB1P44
Golden snub-nosed monkey Rhinopithecus roxellana HMGB1P28
Marmoset Callithrix jacchus HMGB1P58
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

>HMGB1P12
TCAGTACATTGAGCTTCATAGAGACAGCACCCAGGCAAGTGAGAGTTGGATGGACACTGGGCAACTCTGTGCCTTGCTGATGAACTAATAACTAAACATGGCCAAAGGAGAGCCTAAGAAGCTGAAAGGCAAAATGTCATCATATGCATTCTTTGTGCAAACTTGCCGGGAGGAGCACAAAAAGTAGCACCCAGAAGATTCAGTCAGTTTCTCAGAGTTTTCTAAGAAGTGCTCAGAGAGATGGAAACCTGTCTGCAAAAGAGAAAAATTTGAAGACGTGGCAAAGTTGGGGGAGGCCTGTCACAAAAGAGAAATGAAACCTAAATCCCTCCTGAAGGGGAAACAAAAAAGTTCAAGGATCCCAACGCACTCAAGAGGCCTTCTGGAGCCTTTATCTTGTTCGGTTCTGAGTACCGCCCAAAAATCAAAAATAACATCCCAGCCTATCCATTAGTAACGTTGCAAAGAAACTGGGAGAGATGTGGAATAACACTGCTGCAGACAATAAGCAGCCATGTGAAAGGAAGGCTGCAAAGCTGAAGGAAAAATATGACAAGGATATCGTTGTACACGGAGCTAAAGGAAAGCCTGATGCAGCAAAAAAGAAAGCCGTTGGGGCTGAGAAAAGCAAGAAAAAGAaATAAGCTGGTTCTAGTGAAGCTTTTTTCTTTCTTGTCTGTAAAGCATTTAACCTCCCTGTACACAATTCACTCCTTTTAAAGAAAAAAAAATTGAAATGTAAGGCTGTGTAAGATTTAACAACTAAACAGTGTCTTTTTTTGTATAGTTAGCACACTACCAAATGTGTAGTTAGCTAGCCCTGTCCTGATGGTATTTTCAATAGCCACTAATCTTGCTTGTTACAGCAAAGGGGTTGCAAATTGGCATGGAAATTTAAAGCGGGTTTATGTTGGTGCACAGCACAAATTAGTTATATATGGGATGACACCTTTTTCATCTTCAGTTCTCTCTGATGCAGCTTATACAAAATAATTGTTGTTTTGTTTACTAAATGCTAATTTTTAATTGCAAAAAAGTTGCAGCTGTTTTGTTTGACATTCTAAATGCTTCTAAGTAAATATAATTTTAAAAATTAATATTGTTGTCCTTTTCATAGGCCTGAAATTTTTCTTCCTGAGGGGGAAGCTAGCCTTTTGCTTTTGCCCATTTTGTATCACATGAATTATTACAGTGTTTATCTTTTCATATAGTTAGCTGATAAAAAGGTTTTATCTAGACACCCTGCTTCTCATCATGGGAGTAATAAAAGTTAAATTGAGACCGTTTTCATCCATAACTCAATCCCCAAATCTTGATCAGTTGATAACAAATTTCATATAACCCACTTATATTTACAAAGGGAAGAGTAAACAAGCTACTCATAGCAAGGGGTTATGAGAATCAAACATTTTGAAAGTCTGTTTTTGAAGGACTAATAGAAAAGTATGTTTTAATTTTTACATGAGGACTCTATATTCTTTCACTCCCATTACCATGTAATGGTAGTTATATTTTGCAGTTCCTACATTGAAGAAGAACTGAGAATGTATCCCCAAAAGCATGAGCTTAAAATACAAGACCACCATACTGAATATTTTTTTGTTGATGTTAGTTCCATTGAAGACTGAGAGAGCTGGCTGTAAAGGTCTTTTCCCATTTCTCTAAATATGGATTGCTCAGGAAACTTGAGACTCTCCATTAAAAGTATTTCTAATTAATTGGGCCAGCTTTTAAAATGACAATGTCAGATTTAAAATAGGGTATATTTTCCTATAGTGCAGTTTACCTCTTTACAAATCAAATAGATGTGAGGAAAGAAGACATTTAAGCTTTGCATCTCAGTATGAAGTATTCAATTTATTTGAATTTGATTTTTCTTTAAACTTATTAATTAGAGTCAGCGTCTTCTCTGATTAGCAGTTTAGGGAAATTTGACAATTTTGTGGGTTTTGAGATTATCATTATCTTAAAGTGCCAGTATTTTAAAATGGCATTCTTGTAATTTTACACGCTTTTGTGATGAAGTGATGTTTTGTTAAATAATTATGACTTACATTTTTTCCATTTGTATTTTTTATGTAGTTTTAGGAATAATACTGAAAATCTTAGTCATGGATGATACTAATATACTAACCATTGCAGAG
>NM_002128.7
AATGTTACAGAGCGGAGAGAGTGAGGAGGCTGCGTCTGGCTCCCGCTCTCACAGCCATTGCAGTACATTGAGCTCCATAGAGACAGCACCGGGGCAAGTGAGAGCCGGACGGGCACTGGGCGACTCTGTGCCTCGCTGAGGAAAAATAACTAAACATGGGCAAAGGAGATCCTAAGAAGCCGAGAGGCAAAATGTCATCATATGCATTTTTTGTGCAAACTTGTCGGGAGGAGCATAAGAAGAAGCACCCAGATGCTTCAGTCAACTTCTCAGAGTTTTCTAAGAAGTGCTCAGAGAGGTGGAAGACCATGTCTGCTAAAGAGAAAGGAAAATTTGAAGATATGGCAAAAGCGGACAAGGCCCGTTATGAAAGAGAAATGAAAACCTATATCCCTCCCAAAGGGGAGACAAAAAAGAAGTTCAAGGATCCCAATGCACCCAAGAGGCCTCCTTCGGCCTTCTTCCTCTTCTGCTCTGAGTATCGCCCAAAAATCAAAGGAGAACATCCTGGCCTGTCCATTGGTGATGTTGCGAAGAAACTGGGAGAGATGTGGAATAACACTGCTGCAGATGACAAGCAGCCTTATGAAAAGAAGGCTGCGAAGCTGAAGGAAAAATATGAAAAGGATATTGCTGCATATCGAGCTAAAGGAAAGCCTGATGCAGCAAAAAAGGGAGTTGTCAAGGCTGAaaaaagcaagaaaaagaaggaagaggaggaagatgaggaagatgaagaggatgaggaggaggaggaagatgaagaagatgaagatgaagaagaagatgatgatgatgaataagTTGGTTCTAGCGCAGTTTTTTTTTTCTTGTCTATAAAGCATTTAACCCCCCTGTACACAACTCACTCCTTTTAAAGAAAAAAATTGAAATGTAAGGCTGTGTAAGATTTGTTTTTAAACTGTACAGTGTCTTTTTTTGTATAGTTAACACACTACCGAATGTGTCTTTAGATAGCCCTGTCCTGGTGGTATTTTCAATAGCCACTAACCTTGCCTGGTACAGTATGGGGGTTGTAAATTGGCATGGAAATTTAAAGCAGGTTCTTGTTGGTGCACAGCACAAATTAGTTATATATGGGGATGGTAGTTTTTTCATCTTCAGTTGTCTCTGATGCAGCTTATACGAAATAATTGTTGTTCTGTTAACTGAATACCACTCTGTAATTGCAAAAAAAAAAAAAAAGTTGCAGCTGTTTTGTTGACATTCTGAATGCTTCTAAGTAAATACAATTTTTTTTATTAGTATTGTTGTCCTTTTCATAGGTCTGAAATTTTTCTTCTTGAGGGGAAGCTAGTCTTTTGCTTTTGCCCATTTTGAATCACATGAATTATTACAGTGTTTATCCTTTCATATAGTTAGCTAATAAAAAGCTTTTGTCTACACACCCTGCATATCATAATGGGGGTAAAGTTAAGTTGAGATAGTTTTCATCCATAACTGAACATCCAAAATCTTGATCAGTTAAGAAATTTCACATAGCCCACTTACATTTACAAACTGAAGAGTAATCAATCTACTCAAAGCATGGGATTATTAGAATCAAACATTTTGAAAGTCTGTCCTTGAAGGACTAATAGAAAAGTATGTTCTAACCTTTACATGAGGACTCTATTCTTTAACTCCCATTACCATGTAATGGCAGTTATATTTTGCAGTTCCCACATTAAAGAAGACCTGAGAATGTATCCCCAAAAGCGTGAGCTTAAAATACAAGACTGCCATATTAAATTTTTTGTTGACATTAGTCTCAGTGAAGACTATGAAAATGCTGGCTATAGATGTCTTTTCCCATTTATCTAAATATGGACTGCTCAGGAAACGAGACTTTCCATTACAAGTATTTTTAATTAATTGGGCCAGCTTTTCAAACAAAGATGCCACATTCAAAATAGGGTATATTTTCCTATATTACGGTTTGCCCCTTTATAAATCCAAGTAGATAGGAAGAAAGAAGACAAACTTTGCATCTCAGTATGAATTATTCAATTTATTTGAATGATTTTTCTTTACAAAACAAACTCATTCATTAGTCATGTTTATCTGCTTAGGAGTTTAGGGAACAATTTGGCAATTTTGTGGTTTTCGAGATTATCGTTTTCTTAAAGTGCCAGTATTTTAAAATAGCGTTCTTGTAATTTTACACGCTTTTGTGATGGAGTGCTGTTTTGTTATATAATTTAGACTTGGATTCTTTCCATTTGCATTTGTTTATGTAATTTCAGGAGGAATACTGAACATCTGAGTCCTGGATGATACTAATAAACTAATAATTGCAGAGGTTTTAAATACTAGTTAAATGGCTTTCACTTAAGAACTTAAGATTTTGTTACATATTTTTAAATCTTGTTTCTAATAATACCTCTTAGCAGTACCTTTTAAATAAGTATAAGGGATGGCAAAGTTTTTCCCTTTAAAAATACTCACTTTATGCTTATAAATAGGTTAATGGGCTGATAAAAGGTTTTGTCAAACATTGCAAGTATTCGGTGCTATATATAAAGGAGGAAAAACTAGTTTTACTTTCAGAATGATTTAAACAAGATTTTTAAAAACAAGATACATGCAAGCGAACAGCAGGGTTAGTGATAGGCTGCAATTGTGTCGAACATCAGATTTTTTGTTAAGAGGAGCAAATGACTCAATCTGATTTAGATGGAAGTTTCTACTGTATAGAAATCACCATTAATCACCAACATTAATAATTCTGATCCATTTAAAATGAATTCTGGCTCAAGGAGAATTTGTAACTTTAGTAGGTACGTCATGACAACTACCATTTTTTTAAGATGTTGAGAATGGGAACAGTTTTTTTAGGGTTTATTCTTGACCACAGATCTTAAGAAAATGGACAAAACCCCTCTTCAATCTGAAGATTAGTATGGTTTGGTGTTCTAACAGTATCCCCTAGAAGTTGGATGTCTAAAACTCAAGTAAATGGAAGTGGGAGGCAATTTAGATAAGTGTAAAGCCTTGTAACTGAAGATGATTTTTTTTAGAAAGTGTATAGAAACTATTTTAATGCCAAGATAGTTACAGTGCTGTGGGGTTTAAAGACTTTGTTGACATCAAGAAAAGACTAAATCTATAATTAATTGGGCCAACTTTTAAAATGAAGATGCTTTTTAAAACTAATGAACTAAGATGTATAAATCTTAGTTTTTTTGTATTTTAAAGATAGGCATATGGCATATTGATTAACGAGTCAAATTTCCTAACTTTGCTGTGCAAAGGTTGAGAGCTATTGCTGATTAGTTACCACAGTTCTGATGATCGTCCCATCACAGTGTTGTTAATGTTTGCTGTATTTATTAATTTTCTTAAAGTGAAATCTGAAAAATGAAATTTGTGTGTCCTGTGTACCCGAGGGGTAATGATTAAATGATAAAGATAAGAAAAGCGCCCATGTAACACAAACTGCCATTCAACAGGTATTTCCCTTACTACCTAAGGAATTGTAACCATTGCTCAGACATTGTAGGATTTAACTATGTTGAAAACTACAGGAGAggccgggcgcagtggctcacgcctgtaatcccagcactttgggaggccaaggcgggcagatcacgaggtcaggagattgagaccatcctggctaacgtggtgaaaccccgcctctactaaaaatacaaaaaattagccaagcgtggtgctgggcgcctgtagtcccagtaactcaggaggctgaggcaggagaatggcgtgaacccgggaggcggaggttgcagtgagccgagattgtgccactgcactccagcctgggtgacagagcaagactccatctcaaaaaaaaaaaaaaaaCACAGGAGAGACAACTGGTTTTTGAATGAAATACATGGGTACTGCCTTGCTTGACATCACATAGTCCTTGATGAAAGTTCACATTTAGGTCTGCTTGGTACAATACGCCTCCTAAAAAGGTCCTTGATGAAAGTTCACATTTAGGTCTGCTTGGTACAACACGCCTCCTGAAAGGGTCTGATAGCTTTCAGTAGCAGTAAGACACTTGCATGTGATGGTAAGGTATCTGCAAATTTGCACACACCGTACACAGCTTAAGTCTTAGAATTAACTTGCTAAAATGTGAGCCTTTGGTAATTAGGCTGTTTTATTAGGGAGTGTGATAATATTTGAATTTCTTTTCATATTTGTGCTTTGTGTCATTTTCAAATGACCCTTGAAATGTATTTTAAAAGTAGATAAAAGCCAGAAAGTGATTTGATTGTCTATCCAGCAAAAGATGGTGGTTCATTTTCTTGTCCTCTTAATACCAAGGCAGTGCTAATAACACTTGCCACAACTTGGGAAATTCCATGGGTCTATGCCACATTGCTCCCAGAGTAATGAGGCAAAATAGTGCTCTGTTATAGAATTGCTTGTTTCACGATACATCATGACAGATAACCATACAACATGGAATGACACAAACATAATATGCCACACTCCAGAATATGTAATGCTCGTCTTCCAGGGGGGTTCAGTCTAAGGTAATCTCTACCAGGAAGAAATGCTAGATGACTTTAGACATGTGCATTGGTTTGGACCTTCTAATTAGTGGAATTTTTACTTATTTTGACATGAGAGATTACATAGAAtctctatgttgcccaggttggtctccaaatctgctcaaacaatcctcccgcctcagtttctcaagtagctgggattacagggacacaccactgtgcttagcttaaatagttgaatttattgGGCATCCACTGAAAAGAAGGAAGTAGGAATAAAATCTGCAATAGTATGACTAAACCTGTAAGTGAGCATGAGCAGTGGTGGGCAAGGGTATGCAGACTCTGGAATCCAGAAATAGAAAGTCAGTGGAAAgccaggcacagtggctcacacttataatcccagcactttgggaggccgaggtgggaggatcacttgaggccaggagtttgacactagcctgggcaacatagtgaggccttgtctactagaaataAATAATTTTGCAGATATACTAAATACCATTTTAAAAATAAGTGGAAAAGGGATTAGAGAGATCCTTGTAAATTATGTACTCATATTCATTGTTCTCTTTAGTCACATAATTCAGTCATGTACGTGACATTCCACAGTatggtgctccataatacatattttttcttttttcgatctcacttgtatatgatccataatatttttcatcattcccttactgatggacatttagattgtttcctattttttgctgtttaacagtactgcgctgaacatctgtacatttctctcaggcatgtgtgggtcttcagatacctcaaaagtagaactgctgagtcaaaagacatttgcatttaacattttggaagatgttgataaattgcaccccaCCACCCCCCCCCCCCGCCCACAAAAGCTGTTATTTATGCTGTGAAACATTTTAACAATGATTTTGCAATTAA

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