Imagem 1

Example: RPL12P6, GAPDH, ENSG00000237984

Summary

Retrocopy Name HNRNPA1L2
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Plot displaying the genomic locations of a retrocopy (in chr13) and its respective parental gene (in chr12). Each line represents a retrocopy.
Species Homo sapiens
Coordinates (hg38) chr13:52642433-52643782  UCSC
Coordinates (T2T) chr13:51857901-51859250  UCSC
Coordinates (hg19) chr13:53216568-53217917  UCSC
Strand +
Parental Sequence NM_031157.4
Parental seq. overlap 1298 bp
Parental seq. overlap (%) 34.7%
Genomic Region Intergenic
Retrocopy Summary HNRNPA1L2, located on chr13:52642433-52643782, is a retrocopy of the parental gene HNRNPA1. 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 HNRNPA1
Full Name heterogeneous nuclear ribonucleoprotein A1
Also known as ALS19|ALS20|HNRPA1|HNRPA1L3|IBMPFD3|UP 1|hnRNP A1|hnRNP-A1
Coordinate chr12:54280726-54287087
Strand +
Gene summary This gene encodes a member of a family of ubiquitously expressed heterogeneous nuclear ribonucleoproteins (hnRNPs), which are RNA-binding proteins that associate with pre-mRNAs in the nucleus and influence pre-mRNA processing, as well as other aspects of mRNA metabolism and transport. The protein encoded by this gene is one of the most abundant core proteins of hnRNP complexes and plays a key role in the regulation of alternative splicing. Mutations in this gene have been observed in individuals with amyotrophic lateral sclerosis 20. Multiple alternatively spliced transcript variants have been found. There are numerous pseudogenes of this gene distributed throughout the genome. [provided by RefSeq, Feb 2016]

Homology

Species Scientific Name Retrocopy
Gorilla Gorilla gorilla HNRNPA1P57
Chimpanzee Pan troglodytes Without Homology
Bonobo Pan paniscus Without Homology
Orangutan Pongo abelii Without Homology
Gibbon Nomascus leucogenys Without Homology
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)

Massive Mining of Publicly Available RNA-seq Data from Human and Mouse - (ARCHS4)

AdiposeBone MarrowBreast Mammary TissueBrain CerebellumColonColon Colonic MucosaEsophagusHeartHeart VentricleKidneyLiverBrain MidbrainOvaryPancreasBrain PonsKidney CortexEye RetinaMuscle SkeletalSkinSmall IntestineBrain Spinal CordSpleenTestisThymusTracheaHeart ValveMuscle Smooth01234
log10(TPM+1)

Related Sequence

>HNRNPA1L2
TTTTCTGCCCGTGGACGCCGCTGAAGAAGCATCGTTAAAGTCTCTCTTCACCTTGCCGTCATGTCTAAGTCAGCGTCTCCAAAAGAGCCCGAACAGCTGAGGAAGCTCTTCATTGGAGGGTTGAGCTTTGAAACAACTGATGAGAGCCTGAGGAGCCATTTTGAGCAATGGGGAACGCTCACAGACTGTGTGGTAATGAGAGATCCAAACACCAAGCGCTCCAGGGGCTTTGGGTTTGTCACATATGCCACTGTGGAGGAGGTGGATGCAGCTATGAATACAACGCCACACAAGGTGGATGGAAGAGTTGTGGAACCAAAGAGAGCTGTCTCCAGAGAAGATTCTCAAAGACCAGGTGCCCACTTAACTGTGAAAAAGATATTTGTTGGTGGCATTAAAGAAGACACTGAAGAACATCACCTAAGAGATTATTTTGAACAGTATGGAAAAATTGAAGTAATTGAAATCATGACTGACCGAGGCAGTGGCAAGAAAAGGGGCTTTGCCTTTGTAACCTTTGACGACCATGACTCCGTGGATAAGATTGTCATTCAGAAATACCATACTGTGAAGGGCCACAACTGTGAAGTTAGAAAAGCCCTGCCAAAGCAAGAGATGGCTAGTGCTTCATCCAGCCAAAGAGGTCGAAGGGGTTCTGGAAACTTTGGTGGTGGTCGTGGAGATGGTTTCGGTGGGAATGACAACTTTGGTCGTGGAGGAAACTTCAGTGGTCGTGGTGGCTTTGGTGGCAGCTGTGGTGGTGGTGGATATGGTGGCAGTGGGGATGGCTATAATGGATTTGGTAATGATGGAAGCAATTTTGGAGGTGGTGGAAGCTACAATGATTTTGGCAATTACAACAATCAGTCTTCAAATTTTGGACCCATGAAGGGAGGAAATTTTGGAGGCAGAAGCTCTGGCCCCTATGGCGGTGGAGGCCAATACTTTGCAAAACCACAAAACCAAGGTGGCTATGGCGTTTCCgATTTTAATTAGGAAACAAAGCTTAGCAGGAGAGGAGAGCCAGAGAAGTGACAGGGAAGCTACAGGTTACAACAGATTTGTGAACTCAGCCAAGCACAGTGGTGGCAGGGCCTAGCTGCTACAAAGAAGACATGTTTTAGACAAATACTCATGTGTATGGGCAAAAAACTCGAGGACTGTATTTGTGACTAATTGTATAACAGGTTATTTTAGTTTCTGTTCTGTGGAAAGTGTAAAGCATTCCAACAAAGTGTTTTAATGTAGATTTTTTTTTTTGCACCCATGCTGTTGATTGCTAAATGTAATAGTCTGATTGTGACGCTGAATAAATGTCT
>NM_031157.4
AGATACGTTCGTCAGCTTGCTCCTTTCTGCCCGTGGACGCCGCCGAAGAAGCATCGTTAAAGTCTCTCTTCACCCTGCCGTCATGTCTAAGTCAGAGTCTCCTAAAGAGCCCGAACAGCTGAGGAAGCTCTTCATTGGAGGGTTGAGCTTTGAAACAACTGATGAGAGCCTGAGGAGCCATTTTGAGCAATGGGGAACGCTCACGGACTGTGTGGTAATGAGAGATCCAAACACCAAGCGCTCCAGGGGCTTTGGGTTTGTCACATATGCCACTGTGGAGGAGGTGGATGCAGCTATGAATGCAAGGCCACACAAGGTGGATGGAAGAGTTGTGGAACCAAAGAGAGCTGTCTCCAGAGAAGATTCTCAAAGACCAGGTGCCCACTTAACTGTGAAAAAGATATTTGTTGGTGGCATTAAAGAAGACACTGAAGAACATCACCTAAGAGATTATTTTGAACAGTATGGAAAAATTGAAGTGATTGAAATCATGACTGACCGAGGCAGTGGCAAGAAAAGGGGCTTTGCCTTTGTAACCTTTGACGACCATGACTCCGTGGATAAGATTGTCATTCAGAAATACCATACTGTGAATGGCCACAACTGTGAAGTTAGAAAAGCCCTGTCAAAGCAAGAGATGGCTAGTGCTTCATCCAGCCAAAGAGGTCGAAGTGGTTCTGGAAACTTtggtggtggtcgtggaggtggtttcggtggGAATGACAACTTCGGTCGTGGAGGAAACTTCAGTGGTCGTGGTGGCTTTGGTGGCAGCCGTGGTGGTGGTGGATATGGTGGCAGTGGGGATGGCTATAATGGATTTGGTAATGATGGTGGTTATGGAGGAGGCGGCCCTGGTTACTCTGGAGGAAGCAGAGGCTATGGAAGTGGTGGACAGGGTTATGGAAACCAGGGCAGTGGCTATGGCGGGAGTGGCAGCTATGACAGCTATAACAACGGAGGCGGAGGCGGCTTTGGCGGTGGTAGTGGAAGCAATTTTGGAGGTGGTGGAAGCTACAATGATTTTGGGAATTACAACAATCAGTCTTCAAATTTTGGACCCATGAAGGGAGGAAATTTTGGAGGCAGAAGCTCTGGCCCCTATGGCGGTGGAGGCCAATACTTTGCAAAACCACGAAACCAAGGTGGCTATGGCGGTTCCagcagcagcagtagctatggcagtggcagaagATTTTAATTAGGAAACAAAGCTTAGCAGGAGAGGAGAGCCAGAGAAGTGACAGGGAAGCTACAGGTTACAACAGATTTGTGAACTCAGCCAAGCACAGTGGTGGCAGGGCCTAGCTGCTACAAAGAAGACATGTTTTAGACAAATACTCATGTGTATGGGCAAAAAACTCGAGGACTGTATTTGTGACTAATTGTATAACAGGTTATTTTAGTTTCTGTTCTGTGGAAAGTGTAAAGCATTCCAACAAAGGGTTTTAATGTAGATTTTTTTTTTTGCACCCCATGCTGTTGATTGCTAAATGTAACAGTCTGATCGTGACGCTGAATAAATGTCTTTTTTTTAATGTGCTGTGTAAAGTTAGTCTACTCTTAAGCCATCTTGGTAAATTTCCCCAACAGTGTGAAGTTAGAATTCCTTCAGGGTGATGCCAGGTTCTATTTGGAATTTATATACAACCTGCTTGGGTGGAGAAGCCATTGTCTTCGGAAACCTTGGTGTAGTTGAACTGATAGTTACTGTTGTGACCTGAAGTTCACCATTAAAAGGGATTACCCAAGCAAAATCATGGAATGGTTATAAAAGTGATTGTTGGCACATCCTATGCAATATATCTAAATTGAATAATGGTACCAGATAAAATTATAGATGGGAATGAAGCTTGTGTATCCATTATCATGTGTAATCAATAAACGATTTAATTCTCTTGAATGAAATGACAACTGTATGGATTTGGGACTGGCAGAGATTTGGACTTTCCCTACCCACTCCCCCTGATAATAATGTTGAATGCTTCTATCACAATTCAAGTTCAAAGCTCTGCCAGGGAATAGAAACTAGCTGCTGGCTAATGCCGCTCCATAAATCCGCAGATTTGAAGTGTCTGGGAGGCCTTTTAAAAATAACTAATATCAGAAAGCATTTTAATGAACGTAAAGATAGGCTTACATTAAAGGAAAACTGCAGTTTGACTGGGTTCTGGTTGGGTGGGCCTTCAGAGGTTCTATCAGTTAACTATACTAATTAATTTGGAGATTCAAACCATACCAATAGAAACTAAATTTTTCTACATAATTTCATGTTAACTGCAGTTTCCCTTTATGGCACAAGGGGTCACACAACCTACCTAAAATGTTAATTGTATAGAAAATGATTTCTAAACCTTTAACAGTTAATATCCAATAATGTGTTATTTGTACATAGATTCTTTTGAGCCTTACCTTTGGTGCTCTCTCAATTTCAGTGCTATTGTACCTAGTAGCATAGAGATTTGTCTATCAATAGGACTGTATATTCCATCCCATGGGTGTGTTGGAAGTTTGGGGAggaggagggtggtgggaggtgggtgggaggtggtggtgggtgggaAAGCATGGGTGATAGTTCCATGATACTGGCTGAGTTTGCAATAGCAGGTGGAACCCTAACTATTGAGGGAGTTTGCAGATACCTCAGGATTCGTGACAATGCCTTTAAAGATCCAGGAGAGATGTTCAGCTACTAGGAACTGCTAGCAAGTATAGCGCGAATGGCTCCGAGCTCAGACACTCTACAGCTGAGAGTAGACACTTGTGGTATGTGGAGTACAGATAAGCCAGGGGCAGGCCACGGCACGCTCCATGAAAGCTAGGAGGGAGTGAAATATCAGTGATCATCGCAAGGAAGGAGGCAGACAAGAGTAAGGCACACCTGACTCTTAGGACTAGCAGTCAGAACCAGGAGGAAAGGTTTTATTGCTATGCGGGTAGGTAAGAACAGATTTTACTTACATCCATATAGTTACTTAAAGTCCAGTTTTCTGTTAAACATTTTTCTTAATATATTGAGCCAAAACTAGTCCAGTTAAGCTGAACTTGGTTTTTCTGGAGATGAATTGTTTTAAATTGACACCCTATTGATGGCTCCCAGTTGAAGGAAGTGAGCACATTATTTGTACTGTGAATATAAATTTTTGCCCTTTTATTTATCTTCCTTTGACCCATTTCCTTAAAATAATGGCTCAAAGTAATAGACTTCCCCAAATGGTGGGGGGATGGGTGGGTTATTAATGGGAGGTATGGGGGGTTTAGCTTGAGATGGGACTTGGTCTTAGAGCTAGTTCTAAAGGTTGTTTACTTTTCTAGGGAGGAGTCTGCTACTAGTCTTATCAGCTCTTAAAAACAGAAACTCATCTGTCCAAGTTCGTGGCAGAAAGGTAAGTTTTTACAAATTAGTGCTCAGCAAAAGAATGCCCTGCGTTCCCAAAGTAAAAGAATGACAAGCTGTACCTTAAACCAAAACACTTCGTAATCTCATCCAATTGCAAAAAGAGTTATTAGCCAACCAGGTATTCCCAGTAGTGACAGTGGATATAACTGTGTAGTCATTCACCTCTGCTTATATGAATACTTTACAACCTCTTTTGCCTTTTGCAGGAACGTCCTTGTGAAGACCTTTATCTGAGCCACTGTACTTCGTTATCACTGCCATGCAGTTTACATGAGCTGTTCTGCAGCTCAAATTCCATTTTGTGAATGGGTTTTTTTTTTTAATAAACTGTATTTAACTTA

Publications

PMID - Link Title
36215168TRIM67 drives tumorigenesis in oligodendrogliomas through Rho GTPase-dependent membrane blebbing.
35831314Scalable multiplex co-fractionation/mass spectrometry platform for accelerated protein interactome discovery.
35199941HTR1A Inhibits the Progression of Triple-Negative Breast Cancer via TGF-β Canonical and Noncanonical Pathways.
35013218EZH2 depletion potentiates MYC degradation inhibiting neuroblastoma and small cell carcinoma tumor formation.
34079125A proximity-dependent biotinylation map of a human cell.
33961781Dual proteome-scale networks reveal cell-specific remodeling of the human interactome.
33863777SLFN11 Inactivation Induces Proteotoxic Stress and Sensitizes Cancer Cells to Ubiquitin Activating Enzyme Inhibitor TAK-243.
33567341USP11 mediates repair of DNA-protein cross-links by deubiquitinating SPRTN metalloprotease.
33306668In silico APC/C substrate discovery reveals cell cycle-dependent degradation of UHRF1 and other chromatin regulators.
32786267Identification of SUMO Binding Proteins Enriched after Covalent Photo-Cross-Linking.
32640226MAP4K Interactome Reveals STRN4 as a Key STRIPAK Complex Component in Hippo Pathway Regulation.
32433965Unbiased Identification of trans Regulators of ADAR and A-to-I RNA Editing.
31980649Extensive rewiring of the EGFR network in colorectal cancer cells expressing transforming levels of KRAS(G13D).
31665637STING-Mediated IFI16 Degradation Negatively Controls Type I Interferon Production.
31586073The midbody interactome reveals unexpected roles for PP1 phosphatases in cytokinesis.
31501420CCT3 acts upstream of YAP and TFCP2 as a potential target and tumour biomarker in liver cancer.
31470122Cellular substrates and pro-apoptotic function of the human HtrA4 protease.
30021884Histone Interaction Landscapes Visualized by Crosslinking Mass Spectrometry in Intact Cell Nuclei.
29845934The HIV-1 Tat protein recruits a ubiquitin ligase to reorganize the 7SK snRNP for transcriptional activation.
29229926Cell cycle-dependent phosphorylation regulates RECQL4 pathway choice and ubiquitination in DNA double-strand break repair.
29128334A Map of Human Mitochondrial Protein Interactions Linked to Neurodegeneration Reveals New Mechanisms of Redox Homeostasis and NF-κB Signaling.
28977470The PRMT5/WDR77 complex regulates alternative splicing through ZNF326 in breast cancer.
28675297A Human Tyrosine Phosphatase Interactome Mapped by Proteomic Profiling.
28514442Architecture of the human interactome defines protein communities and disease networks.
28416769Nuclear organization of nucleotide excision repair is mediated by RING1B dependent H2A-ubiquitylation.
28302793Anticancer sulfonamides target splicing by inducing RBM39 degradation via recruitment to DCAF15.
28031328Interactome Analysis Reveals a Novel Role for RAD6 in the Regulation of Proteasome Activity and Localization in Response to DNA Damage.
26816005Homologous Transcription Factors DUX4 and DUX4c Associate with Cytoplasmic Proteins during Muscle Differentiation.
26496610A human interactome in three quantitative dimensions organized by stoichiometries and abundances.
26344197Panorama of ancient metazoan macromolecular complexes.
26217791Quantitative analysis of PPT1 interactome in human neuroblastoma cells.
26186194The BioPlex Network: A Systematic Exploration of the Human Interactome.
25963833Quantitative Proteomics Reveals Dynamic Interactions of the Minichromosome Maintenance Complex (MCM) in the Cellular Response to Etoposide Induced DNA Damage.
25948554Disruption of the lamin A and matrin-3 interaction by myopathic LMNA mutations.
24981860Human-chromatin-related protein interactions identify a demethylase complex required for chromosome segregation.
24189400Perturbation of the mutated EGFR interactome identifies vulnerabilities and resistance mechanisms.
22939629A census of human soluble protein complexes.
22810585Viral immune modulators perturb the human molecular network by common and unique strategies.
21873635Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.
21182205Identification of proteins associated with ligand-activated estrogen receptor α in human breast cancer cell nuclei by tandem affinity purification and nano LC-MS/MS.
20360068Systematic analysis of human protein complexes identifies chromosome segregation proteins.
14702039Complete sequencing and characterization of 21,243 full-length human cDNAs.
12477932Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.