Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name MAP1LC3BP1
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Plot displaying the genomic locations of a retrocopy (in chr9) and its respective parental gene (in chr16). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr9:19459231-19461369  UCSC
Coordinates (T2T) chr9:19471968-19474106  UCSC
Coordinates (hg19) chr9:19459229-19461367  UCSC
Strand -
Parental Sequence NM_022818.5
Parental seq. overlap 1222 bp
Parental seq. overlap (%) 42.5%
Genomic Region Intergenic
Retrocopy Summary MAP1LC3BP1, located on chr9:19459231-19461369, is a retrocopy of the parental gene MAP1LC3B. 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 MAP1LC3B
Full Name microtubule associated protein 1 light chain 3 beta
Also known as ATG8F|LC3B|MAP1A/1BLC3|MAP1LC3B-a
Coordinate chr16:87392336-87404774
Strand +
Gene summary The product of this gene is a subunit of neuronal microtubule-associated MAP1A and MAP1B proteins, which are involved in microtubule assembly and important for neurogenesis. Studies on the rat homolog implicate a role for this gene in autophagy, a process that involves the bulk degradation of cytoplasmic component. [provided by RefSeq, Jul 2008]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes MAP1LC3BP3
Bonobo Pan paniscus MAP1LC3BP3
Gorilla Gorilla gorilla MAP1LC3BP3
Orangutan Pongo abelii MAP1LC3BP4
Gibbon Nomascus leucogenys MAP1LC3BP1
Green monkey Chlorocebus sabaeus MAP1LC3BP3
Crab-eating macaque Macaca fascicularis MAP1LC3BP5
Rhesus Macaca mulatta MAP1LC3BP6
Golden snub-nosed monkey Rhinopithecus roxellana MAP1LC3BP8
Baboon Papio anubis 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

The Genotype-Tissue Expression project - (GTEx)

Adipose SubcutaneousMuscle SkeletalArtery TibialArtery CoronaryHeart Atrial AppendageAdipose VisceralUterusVaginaBreast Mammary TissueSkin Not Sun ExposedMinor Salivary GlandBrain CortexAdrenal GlandThyroidLungSpleenPancreasEsophagus MuscularisEsophagus MucosaEsophagus Gastroesophageal JunctionStomachColon SigmoidSmall Intestine Terminal IleumColon TransverseProstateTestisNerve TibialSkin Sun ExposedHeart Left VentricleBrain CerebellumWhole BloodArtery AortaPituitaryBrain Frontal CortexBrain CaudateBrain Nucleus AccumbensBrain PutamenBrain HypothalamusBrain Spinal CordBrain HippocampusBrain Anterior Cingulate CortexOvaryBrain Cerebellar HemisphereLiverBrain Substantia NigraKidney CortexBrain AmygdalaCervix EctocervixFallopian TubeCervix EndocervixBladderKidney Medulla00.10.20.30.4
log10(TPM+1)

Related Sequence

>MAP1LC3BP1
TCAATATTATTGAAAAGGTTCCCACATTTTTAATAGTAGTTCAGTTATCACTGATAGGTCAAATAGCCATCAGAATTCCCCCACACTGAATGCATGTCAGTTGTGGAGAAAACATAGAAAAAGGAGTCATACACTCTTTACAAATACTAATGTCAGGAGTTAAACCTCCTCAGGTTCAACCTGTGATAAAAGACCAGTGCTTCCCACTACCTGCATGGGGTCCACTATTTAGTTTTCTTGGGAGTATCACAGGAAGATCACAGTTACACCACTTTAGACTGTACATGTAGCAAGTCACAACTTACCCTCGTGTGTTTAGATGTGTATGGAATTCCTGTATACATTAGTGAAAGCTATTTACTATAATAGGGGAAACCCAGATTCCTTGCATCTGGGCCCTGTACTGATCATTAAAGCAGTTCCTGTCACCTGCTCTCCCCACTGCATGCATCTGTCCACTTGGCTAACTTTTAATATGTATATTTTTACATTATGTAAATTCTTAACCAGCCTGTCTCATTTAGAATGTATACATCACATCTGACATTATTGTAACTACTGTGTGATCAGTAAGATTCCTATAAGACATACTGCTTTTTAAAAAAAAATAAATAACATGCTGAGGGGTGACCTATAGCCCACATTAGTGAGTGGTCACTTTATTTGCAGGATCTTTAAAACAAGTACATTTTTAATGAACTAAGTTGAATAAAGGTACAATTAAAAGCTGTATGGATCCCCGCACCAGGCCAGCGGAGAAGACCTTCAAGCAGCGCCGCACCTTCCAACAAAGAGTAGATGTCCGACTTATTCAAGAGCAGCATCCAGCCAAAAGCCCGGTGATAACAGAACGATACCAAGGTGAGAAGCAGCTTCCTGTCCTGGATAAAACGAAGTTCCTTGTACCTGACGTTCGAGACGTCAACATGAGTGAGCTCATCAAGATAATTAGAAGGCGCTTACAGCTCAATGCTAATCAAGCCTTCCTCCTGGTGGTGAACGGACATAGCATGGTGAGCGTCTCCACACCAGTCTCAGAGGTGTATGAGAGTGAGAAGGATGAAGATGGATTCCTATACATGGTCTATGCCTCCCAGGAGACGTATGGGATGAAATTGTCAGTGTAAAACTAGAAAAATGCATCTATTCTAGAATTTTTTAAACCCTTACCAAGGGAAAAAAGGGGTGTTGCCAACTGAGATCGATCAGTTCATCTAATCATAGATCATCAAACAGTAGTGTTCCCACCTAGGAGCGTTAGAAGTTGTGTTTGTATTTCAAGCGGCAGAACTGAGCTCCAAGTGAGAACGTTCAGCTTTGGAAACTATATGATTTAATGTAGGCTAGTTTGTTTTCAAATTTTAAAAGTTTAAAAATAAAATACTTTGCATTCTAAGTTGCCAATAAAATAGACCTTCAAGTTATTTTAATGCTCTTTTCTCACTAATAGGAACTTCCAATTCCAGCAGTAATTTAAAGGCTTTCAGAGAGACCCTGAGTCTTCTCTTCAGGTTCACAGAACCCAGCGCCTTTTCGGATAGAAGTTTTCTACTCAGCTAGAGAAATCTCCCTAAGAGGATCTGTAGGCCTCAGCTGTGAAGCATAATCCCTGCAAAACGCATTTGCCGTAATAGTTGGCACAAACGCAGGGTAAATGGGGTGTGTGTAAGAAAACAGCCCTGACTGTAAACTGCTGCTCGAGGTTCCTGACTCCTAACAGAACTACACCCAAAGTCCACACTCTTGCAGGGGTAGACATTTCTTATTTGGTTTGTTCTCTAGTTACACACATAAAGATACCACTGAAAAGGAAACTTGAGTAATTTATAATTTTGATCCAGTTTCTCAAAAGACCCTGGAGAAAGAGTGGCACTTCTTCTGTTTCAGCTTTTGTCTGAGTTCAAACTAGTGCCTGTGTTGGTATGGAAAGAAGCAGTGTACCAGTGTCATTCTTTAGGACAGCGGTAGAAACCACAGAATAGTATAACTAAAAGCATTAAAATTCAGACACACTCCCTTCTACCTTCTGGCTTAAAGCCATGGATGATCC
>NM_022818.5
AGAGTCGGATTcgccgccgcagcagccgccgcccccgggagccgccgggaccctcgcgtcgtcgccgccgccgccgccCAGATCCCTGCACCATGCCGTCGGAGAAGACCTTCAAGCAGCGCCGCACCTTCGAACAAAGAGTAGAAGATGTCCGACTTATTCGAGAGCAGCATCCAACCAAAATCCCGGTGATAATAGAACGATACAAGGGTGAGAAGCAGCTTCCTGTTCTGGATAAAACAAAGTTCCTTGTACCTGACCATGTCAACATGAGTGAGCTCATCAAGATAATTAGAAGGCGCTTACAGCTCAATGCTAATCAGGCCTTCTTCCTGTTGGTGAACGGACACAGCATGGTCAGCGTCTCCACACCAATCTCAGAGGTGTATGAGAGTGAGAAAGATGAAGATGGATTCCTGTACATGGTCTATGCCTCCCAGGAGACGTTCGGGATGAAATTGTCAGTGTAAAACCAGAAAAAATGCAGCTCTTCTAGAATTGTTTAAACCCTTACCAAGGAAAAAAAAGGGATGTTACCAACTGAGATCGATCAGTTCATCCAATCACAGATCATGAAACAGTAGTGTTCCCACCTAGGAGTGTTAGGAAGTTGTGTTTGTGTTTCAAGCAGAAAAACTGAGCTCCAAGTGAGCACATTCAGCTTTGGAAACTATATTATTTAATGTAGGCTAGCTTGTTTTCAAATTTTAAAAGTTTAAAAATAAAATACTTTGCATTCTAAGTTGCCAATAAAATAGACCTTCAAGTTATTTTAATGCTCTTTTCTCACTAATAGGAACTTGTAATTCCAGCAGTAATTTAAAGGCTTTCAGAGAGACCCTGAGTCTTCTCTTCAGGTTCACAAAACCCGCCGCCTTTTTGGGTAGAAGTTTTCTACTCAGCTAGAGAGATCTCCCTAAGAGGATCTTTAGGCCTGAGTTGTGAAGCGCAACCCCCGCAAAACGCATTTGCCATCACAGTTGGCACAAACGCAGGGTAAACGGGCTGTGTGAGAAAACGGCCCTGACTGTAAACTGCTGAAGGTCCCTGACTCCTAAGAGAACCACACCCAAAGTCCTCACTCTTGCAGGGGTAGACATTTCTGGTTTGGTTTGTTCTCTAGATAGTTACACACATAAAGACACCACTCAAAAGGAAACTTGAATAATTTATAATTTTGATCGAGTTTCTTAAAAGACCCTGGAGAAAGAGTGGCATTTCTTCTGTTTCAGGTTTTGTCTGAGTTCAAACTAGTGCCTGTGTTGTTACGGAAAGCAGCAGTGTACCAGTGTCACTCTGGAGTACAGCGGGAGAAACACAAAATAGTATAACTGAAAACATTAACATTCAGACACACTCCCTTCTGCCTTCCGGCTTAAAGCTGTGGATGATCCACGTTTTTGTTTTTTTAATGTTAAATGTGTAACTCAGTATTACTGAAAAGGTACCCACATTTTGAATAGTAGTTATCACTCTTAGGTCAGACAGCCATCAGAATTCTCCCACACCAAGTGCATGTCAGTTGTGGAGAAAACATAGCAAAAAGAGCCGTACGCTCTTTACAGATACTAATGTCAAGAGTTAAACCTCCTCAGGTTCAACCTGTGATAAAAGACTAGTGCTTCCCAGTACTTGCATGGGGTTCACTATTTATAGTTTTCTTGGGAGTATCACAGGAAAATCACAATTACACCACTTTAGACCCTATGTGTAGCAGGTCACAACTTACCCTTGTGTGTTTAGATGTGTATGAAATACCTGTATACGTTAGTGAAAGCTGTTTACTGTAACGGGGAAAACCAGATTCTTTGCATCTGGGCCCTCTACTGATTGTTAAAGGAGTTCCTGTCACCTGCTCCCCCCACCCCCGCATGCGTCTGTCCACTTGGCTAACTTTTAATATGTGTATTTTTACATTATGTATATTCTTAACTGGACTGTCTCGTTTAGACTGTATACATCATATCTGACATTATTGTAACTACCGTGTGATCAGTAAGATTCCTGTAAGAAATACTGCTTTTTAAGAAAAAAAATAACATGCTGAGGGGTGACCTATATCCCATGTGAGTGGTCACTTTATTTATAGGATCTTTAAAACATTTTTAATGAACTAAGTTGAATAAAGGCACAATTAAAAACTGTCA

Publications

PMID - Link Title
No publications available for this retrocopy