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    TRIT1 tRNA isopentenyltransferase 1 [ Homo sapiens (human) ]

    Gene ID: 54802, updated on 5-Mar-2024

    Summary

    Official Symbol
    TRIT1provided by HGNC
    Official Full Name
    tRNA isopentenyltransferase 1provided by HGNC
    Primary source
    HGNC:HGNC:20286
    See related
    Ensembl:ENSG00000043514 MIM:617840; AllianceGenome:HGNC:20286
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    IPT; GRO1; IPPT; MOD5; hGRO1; IPTase; COXPD35
    Summary
    This gene encodes a protein that that is targeted to the mitochondrion and modifies transfer RNAs (tRNAs) by adding a dimethylallyl group onto the adenine at position 37. This modification is important for maintaining the correct reading frame during protein translation. This gene is considered a tumor suppressor and its expression can decrease cell growth. Alternative splicing results in multiple transcripts variants, most of which are likely non-functional. [provided by RefSeq, Aug 2015]
    Expression
    Ubiquitous expression in thyroid (RPKM 7.3), prostate (RPKM 6.7) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See TRIT1 in Genome Data Viewer
    Location:
    1p34.2
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (39838110..39883511, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (39707546..39752951, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (40303782..40349183, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC130932201 Neighboring gene long intergenic non-protein coding RNA 2811 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:40282415-40283410 Neighboring gene uncharacterized LOC105378667 Neighboring gene MPRA-validated peak189 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 821 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 822 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:40348408-40349228 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:40349229-40350047 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:40353876-40354074 Neighboring gene MYCL antisense RNA 1 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:40363871-40364442 Neighboring gene Sharpr-MPRA regulatory region 6057 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 714 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 715 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 716 Neighboring gene MYCL proto-oncogene, bHLH transcription factor Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:40409912-40410434 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 717 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 823 Neighboring gene MFSD2 lysolipid transporter A, lysophospholipid Neighboring gene ribosomal protein S2 pseudogene 12

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ20061, MGC149242, MGC149243

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables tRNA dimethylallyltransferase activity EXP
    Inferred from Experiment
    more info
    PubMed 
    enables tRNA dimethylallyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables tRNA dimethylallyltransferase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables tRNA dimethylallyltransferase activity TAS
    Traceable Author Statement
    more info
    PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in mitochondrial tRNA modification IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in mitochondrial tRNA modification TAS
    Traceable Author Statement
    more info
     
    involved_in tRNA modification IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in tRNA modification IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in mitochondrial matrix TAS
    Traceable Author Statement
    more info
     
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
     

    General protein information

    Preferred Names
    tRNA dimethylallyltransferase
    Names
    IPP transferase
    isopentenyl-diphosphate:tRNA isopentenyltransferase
    tRNA dimethylallyltransferase, mitochondrial
    tRNA isopentenylpyrophosphate transferase
    NP_001299620.1
    NP_001299621.1
    NP_060116.2
    XP_047279181.1
    XP_054193180.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_042822.2 RefSeqGene

      Range
      5007..50401
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001312691.1NP_001299620.1  tRNA dimethylallyltransferase isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (16) lacks an alternate in-frame exon compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AK223478, AY052768, BC010741, BE294565
      Consensus CDS
      CCDS81303.1
      UniProtKB/TrEMBL
      Q53F11
      Related
      ENSP00000361905.1, ENST00000372818.5
      Conserved Domains (3) summary
      smart00451
      Location:369400
      ZnF_U1; U1-like zinc finger
      PRK00091
      Location:24310
      miaA; tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
      pfam13304
      Location:25203
      AAA_21; AAA domain, putative AbiEii toxin, Type IV TA system
    2. NM_001312692.1NP_001299621.1  tRNA dimethylallyltransferase isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (17) lacks two alternate in-frame exons and uses an alternate in-frame splice site compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AK223478, BC010741, BE294565
      Consensus CDS
      CCDS81302.1
      UniProtKB/TrEMBL
      Q53F11
      Related
      ENSP00000388333.2, ENST00000441669.6
      Conserved Domains (2) summary
      smart00451
      Location:313344
      ZnF_U1; U1-like zinc finger
      cl21455
      Location:24251
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
    3. NM_017646.6NP_060116.2  tRNA dimethylallyltransferase isoform 1 precursor

      See identical proteins and their annotated locations for NP_060116.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest functional protein (isoform 1).
      Source sequence(s)
      AK223478, AL033527, AY702933, BE294565
      Consensus CDS
      CCDS30681.1
      UniProtKB/Swiss-Prot
      A1A4X7, Q3T7B5, Q5QPK5, Q5QPK6, Q6IAC9, Q96FJ3, Q96L45, Q9H3H1, Q9NXT7
      UniProtKB/TrEMBL
      Q53F11
      Related
      ENSP00000321810.5, ENST00000316891.10
      Conserved Domains (3) summary
      smart00451
      Location:395426
      ZnF_U1; U1-like zinc finger
      PRK00091
      Location:24333
      miaA; tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
      pfam13304
      Location:25203
      AAA_21; AAA domain, putative AbiEii toxin, Type IV TA system

    RNA

    1. NR_132401.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702934, BE294565
      Related
      ENST00000462797.5
    2. NR_132402.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks an alternate internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702936, BE294565
    3. NR_132403.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) lacks an alternate internal exon and uses an alternate splice site in an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702937, BE294565
    4. NR_132404.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) lacks an alternate internal exon and uses an alternate splice site in an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702938, BE294565
    5. NR_132405.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (7) lacks an alternate internal exon and uses alternate splice site in two internal exons compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702939, BE294565
    6. NR_132406.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (8) lacks two alternate internal exons and uses an alternate splice site in an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702940, BE294565
    7. NR_132407.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (9) lacks three alternate internal exons compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702941, BE294565
    8. NR_132408.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (10) lacks three alternate internal exons and uses an alternate splice site in an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702942, BE294565
    9. NR_132409.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (11) lacks four alternate internal exons compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702943, BE294565
    10. NR_132410.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (12) lacks four alternate internal exons and uses an alternate splice site in an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702944, BE294565
    11. NR_132412.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (13) lacks five alternate internal exons compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702945, BE294565
    12. NR_132413.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (14) lacks seven alternate internal exons compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK223478, AY702946, BE294565
    13. NR_132414.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (15) lacks nine alternate internal exons compared to variant 1. This variant is represented as non-coding because it lacks almost all the reading frame found in variant 1.
      Source sequence(s)
      AK223478, AY702947, BE294565
    14. NR_132415.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (18) uses an alternate splice site in an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AF074918, AK223478, BE294565
      Related
      ENST00000537440.5

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      39838110..39883511 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047423225.1XP_047279181.1  tRNA dimethylallyltransferase isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      39707546..39752951 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054337205.1XP_054193180.1  tRNA dimethylallyltransferase isoform X1