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Aliases for TRNP1 Gene

Aliases for TRNP1 Gene

  • TMF1-Regulated Nuclear Protein 1 2 3 5
  • C1orf225 3 4
  • Chromosome 1 Open Reading Frame 225 2
  • TMF-Regulated Nuclear Protein 1 3
  • TRNP 4
  • TNRP 3

External Ids for TRNP1 Gene

Previous HGNC Symbols for TRNP1 Gene

  • C1orf225

Previous GeneCards Identifiers for TRNP1 Gene

  • GC01P027195
  • GC01P027320
  • GC01P025575

Summaries for TRNP1 Gene

GeneCards Summary for TRNP1 Gene

TRNP1 (TMF1-Regulated Nuclear Protein 1) is a Protein Coding gene.

UniProtKB/Swiss-Prot for TRNP1 Gene

  • DNA-binding factor that regulates the expression of a subset of genes and plays a key role in tangential, radial, and lateral expansion of the brain neocortex. Regulates neural stem cells proliferation and the production of intermediate neural progenitors and basal radial glial cells affecting the process of cerebral cortex gyrification. May control the proliferation rate of cells by regulating their progression through key cell-cycle transition points (By similarity).

Additional gene information for TRNP1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRNP1 Gene

Genomics for TRNP1 Gene

Regulatory Elements for TRNP1 Gene

Enhancers for TRNP1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01H026721 3.1 VISTA Ensembl ENCODE dbSUPER 6.5 -270.0 -270013 3 HDGF PKNOX1 ARNT SIN3A ARID4B FEZF1 DMAP1 ZNF2 YY1 ZNF766 ARID1A PIGV ACTG1P20 GPN2 GPATCH3 HMGN2 LOC101928324 LOC101928728 SELENON NPM1P39
GH01H026990 2 FANTOM5 Ensembl ENCODE dbSUPER 10 +3.1 3127 13 PKNOX1 FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 SLC30A9 ZNF143 FOS PIGV NR0B2 NUDC GPATCH3 TRNP1 KDF1 FAM46B TMEM222
GH01H026691 3.2 FANTOM5 Ensembl ENCODE dbSUPER 5.1 -296.6 -296610 12 MLX FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC ZC3H11A ZFP41 ARID1A HMGN2 LOC101928324 PIGV ACTG1P20 LOC101928728 GPN2 GPATCH3 TMEM222 LOC105376890
GH01H026824 1.6 FANTOM5 ENCODE dbSUPER 8.1 -166.3 -166314 6 HDGF TCF12 ZNF766 GLIS2 ELK1 ZNF143 RUNX3 SSRP1 ZNF610 GLIS1 ZDHHC18 ARID1A HMGN2 SFN ACTG1P20 WASF2 ENSG00000226698 GPATCH3 NUDC NPM1P39
GH01H026909 1.6 Ensembl ENCODE dbSUPER 8 -80.7 -80705 7 FOXA2 MLX ZFP64 ARID4B FEZF1 DMAP1 YY1 SLC30A9 ZNF766 PAF1 PIGV LOC101928324 ZDHHC18 ENSG00000226698 LIN28A LOC101928728 TRNP1 ARID1A KDF1 NR0B2
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TRNP1 on UCSC Golden Path with GeneCards custom track

Promoters for TRNP1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000003647 533 1601 PKNOX1 MLX ARID4B SIN3A DMAP1 ETS1 TCF12 SLC30A9 GLIS2 PAF1

Genomic Location for TRNP1 Gene

Chromosome:
1
Start:
26,993,667 bp from pter
End:
27,000,898 bp from pter
Size:
7,232 bases
Orientation:
Plus strand

Genomic View for TRNP1 Gene

Genes around TRNP1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRNP1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRNP1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRNP1 Gene

Proteins for TRNP1 Gene

  • Protein details for TRNP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6NT89-TRNP1_HUMAN
    Recommended name:
    TMF-regulated nuclear protein 1
    Protein Accession:
    Q6NT89

    Protein attributes for TRNP1 Gene

    Size:
    227 amino acids
    Molecular mass:
    23482 Da
    Quaternary structure:
    • Interacts with TMF1; may regulate TRNP1 proteasomal degradation.

neXtProt entry for TRNP1 Gene

Post-translational modifications for TRNP1 Gene

  • Ubiquitinated, leading to its degradation by the proteasome.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TRNP1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TRNP1 Gene

Domains & Families for TRNP1 Gene

Gene Families for TRNP1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted secreted proteins

Protein Domains for TRNP1 Gene

ProtoNet:

Suggested Antigen Peptide Sequences for TRNP1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with TRNP1: view

No data available for UniProtKB/Swiss-Prot for TRNP1 Gene

Function for TRNP1 Gene

Molecular function for TRNP1 Gene

UniProtKB/Swiss-Prot Function:
DNA-binding factor that regulates the expression of a subset of genes and plays a key role in tangential, radial, and lateral expansion of the brain neocortex. Regulates neural stem cells proliferation and the production of intermediate neural progenitors and basal radial glial cells affecting the process of cerebral cortex gyrification. May control the proliferation rate of cells by regulating their progression through key cell-cycle transition points (By similarity).

Phenotypes From GWAS Catalog for TRNP1 Gene

Gene Ontology (GO) - Molecular Function for TRNP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding ISS --
genes like me logo Genes that share ontologies with TRNP1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for TRNP1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for TRNP1 Gene

Localization for TRNP1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRNP1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TRNP1 gene
Compartment Confidence
nucleus 4

Gene Ontology (GO) - Cellular Components for TRNP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus ISS,IBA --
GO:0005719 colocalizes_with nuclear euchromatin ISS,IEA --
genes like me logo Genes that share ontologies with TRNP1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for TRNP1 Gene

Pathways & Interactions for TRNP1 Gene

SuperPathways for TRNP1 Gene

No Data Available

Interacting Proteins for TRNP1 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000429216%0d%0a9606.ENSP00000381567%0d%0a
Selected Interacting proteins: Q6NT89-TRNP1_HUMAN ENSP00000429216 for TRNP1 Gene via IID STRING

Gene Ontology (GO) - Biological Process for TRNP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0007049 cell cycle IEA --
GO:0007275 multicellular organism development IEA --
GO:0007399 nervous system development IEA --
genes like me logo Genes that share ontologies with TRNP1: view

No data available for Pathways by source and SIGNOR curated interactions for TRNP1 Gene

Drugs & Compounds for TRNP1 Gene

No Compound Related Data Available

Transcripts for TRNP1 Gene

mRNA/cDNA for TRNP1 Gene

(2) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(72) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for TRNP1 Gene

TMF1-regulated nuclear protein 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for TRNP1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for TRNP1 Gene

No ASD Table

Relevant External Links for TRNP1 Gene

GeneLoc Exon Structure for
TRNP1
ECgene alternative splicing isoforms for
TRNP1

Expression for TRNP1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRNP1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TRNP1 Gene

This gene is overexpressed in Esophagus - Mucosa (x4.2).

Protein differential expression in normal tissues from HIPED for TRNP1 Gene

This gene is overexpressed in Lung (24.4), Liver (17.8), Pancreas (11.8), and Heart (9.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for TRNP1 Gene



Protein tissue co-expression partners for TRNP1 Gene

NURSA nuclear receptor signaling pathways regulating expression of TRNP1 Gene:

TRNP1

SOURCE GeneReport for Unigene cluster for TRNP1 Gene:

Hs.355747

Evidence on tissue expression from TISSUES for TRNP1 Gene

  • Eye(4)
genes like me logo Genes that share expression patterns with TRNP1: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRNP1 Gene

Orthologs for TRNP1 Gene

This gene was present in the common ancestor of mammals.

Orthologs for TRNP1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRNP1 33
  • 97.57 (n)
cow
(Bos Taurus)
Mammalia TRNP1 33
  • 91.75 (n)
mouse
(Mus musculus)
Mammalia Trnp1 33 16 34
  • 81.61 (n)
rat
(Rattus norvegicus)
Mammalia Trnp1 33
  • 78.52 (n)
oppossum
(Monodelphis domestica)
Mammalia TRNP1 34
  • 69 (a)
OneToOne
Species where no ortholog for TRNP1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for TRNP1 Gene

ENSEMBL:
Gene Tree for TRNP1 (if available)
TreeFam:
Gene Tree for TRNP1 (if available)

Paralogs for TRNP1 Gene

No data available for Paralogs for TRNP1 Gene

Variants for TRNP1 Gene

Sequence variations from dbSNP and Humsavar for TRNP1 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000155928 -- 26,996,911(+) CTGGC(C/T)AGGGC intron-variant
rs1000838370 -- 26,994,837(+) AGGAA(C/T)GGGTT intron-variant
rs1000989524 -- 27,001,246(+) GTGGT(A/T)CCAGC downstream-variant-500B
rs1001057569 -- 26,993,781(+) GGGGG(C/G)GGGGG utr-variant-5-prime
rs1001065922 -- 27,000,950(+) TGGTG(-/ACA)ACATG downstream-variant-500B

Structural Variations from Database of Genomic Variants (DGV) for TRNP1 Gene

Variant ID Type Subtype PubMed ID
nsv1000012 CNV gain 25217958
nsv834524 CNV gain+loss 17160897

Variation tolerance for TRNP1 Gene

Gene Damage Index Score: 0.27; 6.05% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRNP1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRNP1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRNP1 Gene

Disorders for TRNP1 Gene

Relevant External Links for TRNP1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRNP1

No disorders were found for TRNP1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRNP1 Gene

Publications for TRNP1 Gene

  1. Trnp1 regulates expansion and folding of the mammalian cerebral cortex by control of radial glial fate. (PMID: 23622239) Stahl R … Götz M (Cell 2013) 3 4 60
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3 60
  3. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 4 60
  4. trnp: A conserved mammalian gene encoding a nuclear protein that accelerates cell-cycle progression. (PMID: 16792503) Volpe M … Nir U (DNA and cell biology 2006) 3 60
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 4 60

Products for TRNP1 Gene

Sources for TRNP1 Gene

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