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Aliases for IFIT1 Gene

Aliases for IFIT1 Gene

  • Interferon Induced Protein With Tetratricopeptide Repeats 1 2 3 5
  • Interferon-Induced Protein With Tetratricopeptide Repeats 1 2 3
  • Interferon-Induced 56 KDa Protein 3 4
  • IFI-56K 3 4
  • IFNAI1 3 4
  • IFIT-1 3 4
  • G10P1 3 4
  • IFI56 3 4
  • ISG56 3 4
  • P56 3 4
  • Interferon, Alpha-Inducible Protein (MW 56kD) 3
  • Interferon-Inducible MRNA 561 3
  • IFI-56 3
  • RNM561 3
  • C56 3

External Ids for IFIT1 Gene

Previous HGNC Symbols for IFIT1 Gene

  • G10P1
  • IFI56
  • IFNAI1

Previous GeneCards Identifiers for IFIT1 Gene

  • GC10P090033
  • GC10P090374
  • GC10P091283
  • GC10P090816
  • GC10P091142
  • GC10P084786

Summaries for IFIT1 Gene

Entrez Gene Summary for IFIT1 Gene

  • This gene encodes a protein containing tetratricopeptide repeats that was originally identified as induced upon treatment with interferon. The encoded protein may inhibit viral replication and translational initiation. This gene is located in a cluster on chromosome 10 with five other closely related genes. There is a pseudogene for this gene on chromosome 13. Alternatively spliced transcript variants encoding multiple isoforms have been observed. [provided by RefSeq, Aug 2012]

GeneCards Summary for IFIT1 Gene

IFIT1 (Interferon Induced Protein With Tetratricopeptide Repeats 1) is a Protein Coding gene. Among its related pathways are Transport of the SLBP independent Mature mRNA and Hepatitis C. Gene Ontology (GO) annotations related to this gene include RNA binding. An important paralog of this gene is IFIT1B.

UniProtKB/Swiss-Prot for IFIT1 Gene

  • Interferon-induced antiviral RNA-binding protein that specifically binds single-stranded RNA bearing a 5-triphosphate group (PPP-RNA), thereby acting as a sensor of viral single-stranded RNAs and inhibiting expression of viral messenger RNAs. Single-stranded PPP-RNAs, which lack 2-O-methylation of the 5 cap and bear a 5-triphosphate group instead, are specific from viruses, providing a molecular signature to distinguish between self and non-self mRNAs by the host during viral infection. Directly binds PPP-RNA in a non-sequence-specific manner. Viruses evolved several ways to evade this restriction system such as encoding their own 2-O-methylase for their mRNAs or by stealing host cap containing the 2-O-methylation (cap snatching mechanism). Exhibits antiviral activity against several viruses including human papilloma and hepatitis C viruses.

Gene Wiki entry for IFIT1 Gene

Additional gene information for IFIT1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for IFIT1 Gene

Genomics for IFIT1 Gene

GeneHancer (GH) Regulatory Elements for IFIT1 Gene

Promoters and enhancers for IFIT1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH10J089391 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 650.7 +0.5 501 2.8 ARID4B SIN3A IRF4 BRCA1 RAD21 ETS1 RFX5 YY1 EGR1 SCRT2 IFIT5 IFIT1 ENSG00000232110 SLC16A12-AS1 GC10P089413 LIPA
GH10J089392 Enhancer 0.4 ENCODE 650.7 -1.5 -1467 0.2 ZNF121 NFIC NFIB IFIT1 GC10M089235 LIPA
GH10J089326 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 11.3 -64.5 -64533 3.7 ATF1 ZNF133 ARID4B YY1 GLIS2 ATF7 RXRA NCOA1 REST ZNF518A IFIT3 IFIT5 IFIT2 ENSG00000232110 IFIT1 LOC101926887 GC10M089235 LIPA
GH10J089330 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 11.3 -59.8 -59829 5.2 FOXA2 SMAD1 MLX ARID4B YBX1 IRF4 YY1 ZNF207 ATF7 RUNX3 IFIT3 IFIT5 IFIT2 IFIT1B ENSG00000232110 IFIT1 LOC101926887 GC10M089235 LIPA
GH10J089295 Enhancer 1.2 FANTOM5 Ensembl ENCODE dbSUPER 18.4 -96.0 -96020 3 SP1 RXRA MAX CEBPB CEBPG HNF4A PRDM1 IFIT3 IFIT2 IFIT5 IFIT1 IFIT1B FAS ENSG00000232110 LOC105378419 GC10M089235 LIPA
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around IFIT1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the IFIT1 gene promoter:
  • POU3F2 (N-Oct-5b)
  • POU3F2 (N-Oct-5a)
  • POU3F2
  • ISGF-3
  • AML1a
  • ATF6
  • GATA-1
  • Gfi-1

Genomic Locations for IFIT1 Gene

Genomic Locations for IFIT1 Gene
chr10:89,392,546-89,406,487
(GRCh38/hg38)
Size:
13,942 bases
Orientation:
Plus strand
chr10:91,152,303-91,163,745
(GRCh37/hg19)
Size:
11,443 bases
Orientation:
Plus strand

Genomic View for IFIT1 Gene

Genes around IFIT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
IFIT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for IFIT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for IFIT1 Gene

Proteins for IFIT1 Gene

  • Protein details for IFIT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P09914-IFIT1_HUMAN
    Recommended name:
    Interferon-induced protein with tetratricopeptide repeats 1
    Protein Accession:
    P09914
    Secondary Accessions:
    • B3KS50
    • D3DR31
    • Q5T7J1
    • Q96QM5

    Protein attributes for IFIT1 Gene

    Size:
    478 amino acids
    Molecular mass:
    55360 Da
    Quaternary structure:
    • Component of an interferon-dependent multiprotein complex, at least composed of IFIT1, IFIT2 and IFIT3. Interacts (via TPR repeats 4-7) with EEF1A1 (By similarity). Interacts with EIF3C (By similarity). Interacts with IFIT2 and IFIT3. Interacts (via TPR repeats 1-4) with RPL15. Interacts with TMEM173/MITA and disrupts its interaction with MAVS or TBK1. Interacts with EIF3E. Interacts (via TPR repeat 2) with E1 proteins of HPV types 11, 18 and 3 and this interaction blocks E1 helicase activity and viral replication.

    Three dimensional structures from OCA and Proteopedia for IFIT1 Gene

    Alternative splice isoforms for IFIT1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for IFIT1 Gene

Post-translational modifications for IFIT1 Gene

Other Protein References for IFIT1 Gene

No data available for DME Specific Peptides for IFIT1 Gene

Domains & Families for IFIT1 Gene

Gene Families for IFIT1 Gene

Protein Domains for IFIT1 Gene

Graphical View of Domain Structure for InterPro Entry

P09914

UniProtKB/Swiss-Prot:

IFIT1_HUMAN :
  • RNA recognition is mediated by a convoluted intramolecular fold of the TPR repeats (TPR eddy), which scaffolds unique additional helices that form an RNA binding cleft.
  • Belongs to the IFIT family.
Domain:
  • RNA recognition is mediated by a convoluted intramolecular fold of the TPR repeats (TPR eddy), which scaffolds unique additional helices that form an RNA binding cleft.
Family:
  • Belongs to the IFIT family.
genes like me logo Genes that share domains with IFIT1: view

Function for IFIT1 Gene

Molecular function for IFIT1 Gene

UniProtKB/Swiss-Prot Function:
Interferon-induced antiviral RNA-binding protein that specifically binds single-stranded RNA bearing a 5-triphosphate group (PPP-RNA), thereby acting as a sensor of viral single-stranded RNAs and inhibiting expression of viral messenger RNAs. Single-stranded PPP-RNAs, which lack 2-O-methylation of the 5 cap and bear a 5-triphosphate group instead, are specific from viruses, providing a molecular signature to distinguish between self and non-self mRNAs by the host during viral infection. Directly binds PPP-RNA in a non-sequence-specific manner. Viruses evolved several ways to evade this restriction system such as encoding their own 2-O-methylase for their mRNAs or by stealing host cap containing the 2-O-methylation (cap snatching mechanism). Exhibits antiviral activity against several viruses including human papilloma and hepatitis C viruses.
UniProtKB/Swiss-Prot Induction:
By type I interferons, dsRNAs and viruses.
GENATLAS Biochemistry:
interferon alpha-inducible protein,56kDa (clone IFI-56K),also induced by interleukin 1,retinoic acid,viral infection...

Gene Ontology (GO) - Molecular Function for IFIT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA,IDA 21642987
GO:0005515 protein binding IPI 16189514
genes like me logo Genes that share ontologies with IFIT1: view
genes like me logo Genes that share phenotypes with IFIT1: view

Animal Model Products

Clone Products

  • Addgene plasmids for IFIT1

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for IFIT1 Gene

Localization for IFIT1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for IFIT1 Gene

Cytoplasm.

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 IFIT1 gene
Compartment Confidence
cytosol 5
nucleus 3
golgi apparatus 2
extracellular 1
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for IFIT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA,IEA 19008854
GO:0005829 cytosol TAS --
GO:0043657 host cell IEA --
genes like me logo Genes that share ontologies with IFIT1: view

Pathways & Interactions for IFIT1 Gene

genes like me logo Genes that share pathways with IFIT1: view

Gene Ontology (GO) - Biological Process for IFIT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0009615 response to virus IMP,IDA 21642987
GO:0016032 viral process IEA --
GO:0019060 intracellular transport of viral protein in host cell IDA 19008854
GO:0032091 negative regulation of protein binding IDA 19416887
GO:0045070 positive regulation of viral genome replication IDA 19416887
genes like me logo Genes that share ontologies with IFIT1: view

No data available for SIGNOR curated interactions for IFIT1 Gene

Drugs & Compounds for IFIT1 Gene

No Compound Related Data Available

Transcripts for IFIT1 Gene

mRNA/cDNA for IFIT1 Gene

Unigene Clusters for IFIT1 Gene

Interferon-induced protein with tetratricopeptide repeats 1:
Representative Sequences:

Clone Products

  • Addgene plasmids for IFIT1

Alternative Splicing Database (ASD) splice patterns (SP) for IFIT1 Gene

No ASD Table

Relevant External Links for IFIT1 Gene

GeneLoc Exon Structure for
IFIT1
ECgene alternative splicing isoforms for
IFIT1

Expression for IFIT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for IFIT1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for IFIT1 Gene

This gene is overexpressed in Brain - Substantia nigra (x5.7).

Protein differential expression in normal tissues from HIPED for IFIT1 Gene

This gene is overexpressed in Spleen (16.2), Bone (9.0), and Lymph node (8.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for IFIT1 Gene



Protein tissue co-expression partners for IFIT1 Gene

NURSA nuclear receptor signaling pathways regulating expression of IFIT1 Gene:

IFIT1

SOURCE GeneReport for Unigene cluster for IFIT1 Gene:

Hs.20315

Evidence on tissue expression from TISSUES for IFIT1 Gene

  • Intestine(4.3)
  • Nervous system(4.3)
  • Kidney(2.2)
  • Spleen(2.2)
  • Blood(2.1)
  • Lung(2.1)
  • Liver(2)
genes like me logo Genes that share expression patterns with IFIT1: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for IFIT1 Gene

Orthologs for IFIT1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for IFIT1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia IFIT1 33
  • 99.09 (n)
cow
(Bos Taurus)
Mammalia IFIT1 34 33
  • 80.76 (n)
OneToOne
dog
(Canis familiaris)
Mammalia IFIT1 34 33
  • 80.75 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ifit1lb 33
  • 70.59 (n)
mouse
(Mus musculus)
Mammalia Gm14446 33
  • 69.82 (n)
Ifit1bl2 16
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 53 (a)
ManyToMany
-- 34
  • 52 (a)
ManyToMany
-- 34
  • 49 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 52 (a)
OneToMany
chicken
(Gallus gallus)
Aves -- 34
  • 42 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 31 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia ifit5 33
  • 50.71 (n)
zebrafish
(Danio rerio)
Actinopterygii si:dkey-26g8.12 33
  • 47.07 (n)
si:dkey-26g8.11 34
  • 32 (a)
ManyToMany
si:dkey-26g8.10 34
  • 31 (a)
ManyToMany
ifit5 34
  • 31 (a)
ManyToMany
CR759879.1 34
  • 30 (a)
ManyToMany
zgc:123282 34
  • 28 (a)
ManyToMany
ifit2 34
  • 24 (a)
ManyToMany
si:dkey-116m16.3 34
  • 24 (a)
ManyToMany
si:ch211-240h7.2 34
  • 24 (a)
ManyToMany
Species where no ortholog for IFIT1 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)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for IFIT1 Gene

ENSEMBL:
Gene Tree for IFIT1 (if available)
TreeFam:
Gene Tree for IFIT1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for IFIT1: view image

Paralogs for IFIT1 Gene

Paralogs for IFIT1 Gene

(4) SIMAP similar genes for IFIT1 Gene using alignment to 2 proteins:

  • IFIT1_HUMAN
  • D3DR31_HUMAN

Pseudogenes.org Pseudogenes for IFIT1 Gene

genes like me logo Genes that share paralogs with IFIT1: view

Variants for IFIT1 Gene

Sequence variations from dbSNP and Humsavar for IFIT1 Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs1000120552 -- 89,405,637(+) T/C 3_prime_UTR_variant
rs1000322054 -- 89,403,984(+) C/T 3_prime_UTR_variant
rs1000494037 -- 89,405,927(+) C/T 3_prime_UTR_variant
rs1000638985 -- 89,391,323(+) C/G upstream_transcript_variant
rs1000752167 -- 89,398,458(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for IFIT1 Gene

Variant ID Type Subtype PubMed ID
esv34085 CNV loss 18971310
nsv819719 CNV gain 19587683

Variation tolerance for IFIT1 Gene

Residual Variation Intolerance Score: 80.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.04; 21.34% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for IFIT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
IFIT1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for IFIT1 Gene

Disorders for IFIT1 Gene

Additional Disease Information for IFIT1

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for IFIT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for IFIT1 Gene

Publications for IFIT1 Gene

  1. The interferon- and virus-inducible IFI-56K and IFI-54K genes are located on human chromosome 10 at bands q23-q24. (PMID: 1377167) Lafage M … Huez G (Genomics 1992) 2 3 22 58
  2. The IFI-56K and IFI-54K interferon-inducible human genes belong to the same gene family. (PMID: 3360121) Wathelet MG … Huez GA (FEBS letters 1988) 2 3 4 58
  3. Structural basis for viral 5'-PPP-RNA recognition by human IFIT proteins. (PMID: 23334420) Abbas YM … Nagar B (Nature 2013) 3 4 58
  4. IFIT1 is an antiviral protein that recognizes 5'-triphosphate RNA. (PMID: 21642987) Pichlmair A … Superti-Furga G (Nature immunology 2011) 3 4 58
  5. The ISG56/IFIT1 gene family. (PMID: 20950130) Fensterl V … Sen GC (Journal of interferon & cytokine research : the official journal of the International Society for Interferon and Cytokine Research 2011) 3 4 58

Products for IFIT1 Gene

Sources for IFIT1 Gene

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