Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

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Summary

Retrocopy Name HAVCR1P1
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Plot displaying the genomic locations of a retrocopy (in chr19) and its respective parental gene (in chr5). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr19:24161061-24163495  UCSC
Coordinates (T2T) chr19:24311253-24313687  UCSC
Coordinates (hg19) chr19:24343863-24346297  UCSC
Strand -
Parental Sequence XM_024446023.1
Parental seq. overlap 1787 bp
Parental seq. overlap (%) 62.9%
Genomic Region Intergenic
Retrocopy Summary HAVCR1P1, located on chr19:24161061-24163495, is a retrocopy of the parental gene HAVCR1. 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 HAVCR1
Full Name hepatitis A virus cellular receptor 1
Also known as CD365|HAVCR|HAVCR-1|KIM-1|KIM1|TIM|TIM-1|TIM1|TIMD-1|TIMD1
Coordinate chr5:157028383-157069633
Strand -
Gene summary The protein encoded by this gene is a membrane receptor for both human hepatitis A virus (HHAV) and TIMD4. The encoded protein may be involved in the moderation of asthma and allergic diseases. The reference genome represents an allele that retains a MTTVP amino acid segment that confers protection against atopy in HHAV seropositive individuals. The protein is a receptor for multiple other viruses, including Ebola virus, Marburg virus, Dengue virus, and Zika virus and is a possible entry factor for SARS-CoV-2 and other coronaviruses. [provided by RefSeq, Sep 2021]

Homology

Species Scientific Name Retrocopy
Chimpanzee Pan troglodytes HAVCR1P1
Bonobo Pan paniscus HAVCR1P1
Gorilla Gorilla gorilla HAVCR1P1
Orangutan Pongo abelii HAVCR1P1
Gibbon Nomascus leucogenys HAVCR1P1
Green monkey Chlorocebus sabaeus Without Homology
Crab-eating macaque Macaca fascicularis Without Homology
Rhesus Macaca mulatta Without Homology
Baboon Papio anubis Without Homology
Golden snub-nosed monkey Rhinopithecus roxellana 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 Medulla00.51
log10(TPM+1)

Related Sequence

>HAVCR1P1
CATTTATGCAATTTGTATTACATGTGTGTCATGGTGCTAAGCATTTAAACAACCATCAGGATTTCTGAACAAATTTTTAGAACCAAGAAGGTCAGAAATAAAAGAGAGAAAAAAAAAGGCTGCGGTAGGGAAAAGGCTGCCTTTTCTGACTTATAAGTTACATTGCAGATATAAGTGTTTGAAACTCACTAGTTTTGACCCAAATTCTAAATCGTCTCCAAACCACTTTTATGTTTAAAATTGATTTGGAGGCTAAGACTAGGAGGAGGGAGAAGAAGCTGGAAAACTGCCTTCTAACTAACTGGCTGATCCCATAATGTATCCTGAAGTGGCCATCTTAAGCCTCATCCTACATCTGGCAGATTCTGTAGCTGGTTCTGTAAAGGTTGGTGGAATGGCAGGTCCGTCTATCACGCTACCCTGCCACTACAATGGAGCTGTCACATCCATGTGCTGGAATAGAGGCGCACGTTCTTTATTCACATGCTGAAATAGCATTGTCTGGACCAATGGAACCCACGTCACCTATCGGAAGGACACACACTATAAGGTATTGGGGGACCTTTCAAGAAGGGATGTCCCTTTGACTATAGAAAATACAGCTGTGTCTGACAGTGGCTTATATTGTTGCCATGTTGAGCACAGTGGGTGGTTCAATGACATGAAAATCACTCTATCATTGGAGATTGTGCCACCCAGGGTCACGACTACACCAATTGTCACAACTGTTCCAACCGCCACTACTGTTTGAACGAGCATCACTGTTCCAATGACAACAAGCGTTCCAACGACAACAACTGTTCCAACGACAAAGACTGTTCCAACAACAACGAGCATTTCAATGAAAACAAGTGTTCCAATGACAACAATGGTCTCTACCTTTGTTCCTCCAACGCCATTGCCCACGCAGAACCATCAATCAGTAGCCACTTCACCATCTTCACCTCAGCCAGCAGAAACCCACCCTATGACACTTCAGGGAGAAATAAGGACACAACCCACCAGCTCACCATTGCACTCTTTCACAACAGATGGGAATGACACCATGACAGAGTCTTCAGATGGCCTTTGGAATAACAATCAAACTCAACTGTCCCCAGCATATAGTCCACAGATGGTCAACACCACTAAAGGAATCTGTGCTGGAGTCTGTATTTCTGTCTTGGTGCTTCTTGCTCTTTTGGGTGTCATCATTGCCAAAAAGTATTTCTTCAAAGAGGAGACTCAACAACTAAGTGTTTCATTTAGCAGTCTTCAAACTAAAGCTTTGCAAAATGCAGTTAAAAAGGAAGTCCAAGCAGAAGACAATATCTACATTGAGAATAATGTTTATGCCACGGACTAAGACCCAGTGGTGCTCTTTGAGAGTTTACGCCCATGACTGCAGAAGACTGAACAGGTATCAGCACATCAGATGTCTTTTAGACTCCAAGACAATTTTTCTGTTTCAGTTTCATCTGGCATTCCAACATGTCAGTGATACTGGGTAGAGTAACTCTCCCACTCCAAACTGTGTATAGTCAACCTCATCATTAATGTAGTCCTAATTTGTTTTGCTAAAACTGGCTCAATCCTTCTGATCATTGCAGAGTTTTCTCTCAAACATGAACACTTTAGAATTGTATGTTCTCTTTAGACCCCATAAATCCTGTATCCATCAAAGAGAATAGTCCCTGGAAACATAGCAAATGAACTTCTATCTTGGCCATCAAAGCTGTCCAGAAGAGGGGAATCTGTCTCCAAAATCAGCAAATCCAATGTGAGACTTCATTTGGAAGCATTGCATGATTATCTCTTGTTTCTATATACTTCCAAATGTTGCATTTCCTATGTTTTCCAAAGGTTTCTAATCGTGGGTTTTATTTCCTCTATGGGGAAACAAAGTGAGTATAATTCACTCTAACAGGTTTAGCTGTTTTCTCACGACTCTGGAAATGTGATGCATTAAGTACTGGATCTCTGAATTGGGGTAGTTATTTTACCAGTTAAAAGAGGCTACAATAGTATGGAACACATAGACACCAGGGGAAGAAAATCATTTGCCAGGTGATTCAACATATTTATACATTAt
>XM_024446023.1
caaaacaaaTGCCCAGTAGAGAACAAGTACTGTAACAATCTCCCTGTAATCTGTTTAAATTTGTAAGTGGATCAAATCCAGTAAAAAGATCAGCCAACTGGAGAAATGTAATGTTCAAACGTGCTTCCCCGTATTCTTATGTAAAGGTGTGGCAAAGAGATAAAGAATGGAATTCTGGGAGAAAGTAGTCTTAATCTATAAAGATCTTTGGAGGAGGGCTACAAACAGACCAGGAGGAGGGAGGAGAAGCTGGAAAACCGCCTTCTAACTAACCGGCTGATCCCATAATGCATCCTCAAGTGGTCATCTTAAGCCTCATCCTACATCTGGCAGATTCTGTAGCTGGTTCTGTAAAGGTTGGTGGAGAGGCAGGTCCATCTGTCACACTACCCTGCCACTACAGTGGAGCTGTCACATCCATGTGCTGGAATAGAGGCTCATGTTCTCTATTCACATGCCAAAATGGCATTGTCTGGACCAATGGAACCCACGTCACCTATCGGAAGGACACACGCTATAAGCTATTGGGGGACCTTTCAAGAAGGGATGTCTCTTTGACCATAGAAAATACAGCTGTGTCTGACAGTGGCGTATATTGTTGCCGTGTTGAGCACCGTGGGTGGTTCAATGACATGAAAATCACCGTATCATTGGAGATTGTGCCACCCAAGGTCACGACTACTCCAATTGTCACAACTGTTCCAACCGTCACGACTGTTCGAACGAGCACCACTGTTCCAACGACAACGACTGTTCCAATGACGACTGTTCCAACGACAACTGTTCCAACAACAATGAGCATTCCAACGACAACGACTGTTCTGACGACAATGACTGTTTCAACGACAACGAGCGTTCCAACGACAACGAGCATTCCAACAACAACAAGTGTTCCAGTGACAACAACTGTCTCTACCTTTGTTCCTCCAATGCCTTTGCCCAGGCAGAACCATGAACCAGTAGCCACTTCACCATCTTCACCTCAGCCAGCAGAAACCCACCCTACGACACTGCAGGGAGCAATAAGGAGAGAACCCACCAGCTCACCATTGTACTCTTACACAACAGATGGGAATGACACCGTGACAGAGTCTTCAGATGGCCTTTGGAATAACAATCAAACTCAACTGTTCCTAGAACATAGTCTACTGACGGCCAATACCACTAAAGGAATCTATGCTGGAGTCTGTATTTCTGTCTTGGTGCTTCTTGCTCTTTTGGGTGTCATCATTGCCAAAATGTTTCATTTAGCAGCCTTCAAATTAAAGCTTTGCAAAATGCAGTTGAAAAGGAAGTCCAAGCAGAAGACAATATCTACATTGAGAATAGTCTTTATGCCACGGACTAAGACCCAGTGGTGCTCTTTGAGAGTTTACGCCCATGAGTGCAGAAGACTGAACAGACATCAGCACATCAGACGTCTTTTAGACCCCAAGACAATTTTTCTGTTTCAGTTTCATCTGGCATTCCAACATGTCAGTGATACTGGGTAGAGTAACTCTCTCACTCCAAACTGTGTATAGTCAACCTCATCATTAATGTAGTCCTAATTTTTTATGCTAAAACTGGCTCAATCCTTCTGATCATTGCAGTTTTCTCTCAAATATGAACACTTTATAATTGTATGTTCTTTTTAGACCCCATAAATCCTGTATACATCAAAGAGAATAGTCCCTGGAAACATAGCAAATGAACTTCTATCTTGGCCATCACAGCTGTCCAGAAGAGGGGAATCTGTCTTAAAAACCAGCAAATCCAACGTGAGACTTCATTTGGAAGCATTGTATGATTATCTCTTGTTTCTATGTTATACTTCCAAATGTTGCATTTCCTATGTTTTCCAAAGGTTTCAAATCGTGGGTTTTTATTTCCTCCGTGGGGAAACAAAGTGAGTCTAACTCACAGGTTTAGCTGTTTTCTCATAACTCTGGAAATGTGATGCATTAAGTACTGGATCTCTGAATTGGGGTAGCTGTTTTACCAGTTAAAGAGCCTACAATAGTATGGAACACATAGACACCAGGGGAAGAAAATCATTTGCCAGGTGATTTAACATATTTATGCAAtttttttttttttttttgagatggagctttgctcttgttgcccaggctggagtgcgatggtgaaatctcggctcactgtaacctccaccttccgggttcaagcaattctcccgcctcagcctcacgagtagctgggattacaggtgtccgccactatgctcagctaattttttgtatttttttagtagagacagggtttcatcatgttggccagaatgatctcgaactcctgacctcagaggatccagcctccttggccttccaaagtgctgggattacaggcatgagccaccgtgcctggtcCATTTATGCAATTTTTATTACACGTGTGTCATGGTGCTAAGCATTTAAACAACCATCAGGCTTTCTGAACAAATTTTTAGAACCAAGAAGATCAGCAATAAAAGAAAAAAAAAAGGCGGGAGTAGGGAAAAGTCTGCCTTTTCTGCCTTATAAGTTACATTGCAGATATAAGTGTTTGAAACTCACTAGTTTTGACCCAAATTCTAAATCGCCTCCAAACCACTTTCATGTTTAAAATTGTTTAGGAGGCTAgcgccgtggctcatgcctgtaatcccagcactttgtgaagccaaggtgggcaggtagcttgagcccagaagtttgag

Publications

PMID - Link Title
No publications available for this retrocopy