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TRIT1 tRNA isopentenyltransferase 1 [ Homo sapiens (human) ]

Gene ID: 54802, updated on 5-Aug-2018

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; Vega:OTTHUMG00000009245
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

Genomic context

See TRIT1 in Genome Data Viewer
Location:
1p34.2
Exon count:
12
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (39841031..39883511, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (40306703..40349177, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985740 Neighboring gene uncharacterized LOC105378665 Neighboring gene uncharacterized LOC105378667 Neighboring gene uncharacterized LOC105378668 Neighboring gene MYCL proto-oncogene, bHLH transcription factor Neighboring gene major facilitator superfamily domain containing 2A 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 Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Metabolic pathways, organism-specific biosystem (from KEGG)
    Metabolic pathways, organism-specific biosystem
    Metabolic pathways
  • tRNA modification in the mitochondrion, organism-specific biosystem (from REACTOME)
    tRNA modification in the mitochondrion, organism-specific biosystemThe 22 tRNAs encoded by the mitochondrial genome are modified in the mitochondrial matrix by enzymes encoded in the nucleus and imported into mitochondria (reviewed in Suzuki et al. 2011, Salinas-Gie...
  • tRNA modification in the nucleus and cytosol, organism-specific biosystem (from REACTOME)
    tRNA modification in the nucleus and cytosol, organism-specific biosystemAt least 92 distinct tRNA nucleotide base modifications have been found. The modifications are made post-transcriptionally by a large group of disparate enzymes located in the nucleus, cytosol, and m...
  • tRNA processing, organism-specific biosystem (from REACTOME)
    tRNA processing, organism-specific biosystemGenes encoding transfer RNAs (tRNAs) are transcribed by RNA polymerase III in the nucleus and by mitochondrial RNA polymerase in the mitochondrion.In the nucleus transcription reactions produce precu...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ20061, MGC149242, MGC149243

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
tRNA dimethylallyltransferase activity EXP
Inferred from Experiment
more info
PubMed 
tRNA dimethylallyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
tRNA dimethylallyltransferase activity TAS
Traceable Author Statement
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
mitochondrial tRNA modification TAS
Traceable Author Statement
more info
 
tRNA modification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
mitochondrial matrix TAS
Traceable Author Statement
more info
 
mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

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_005271011.1
XP_006710769.1

NCBI Reference Sequences (RefSeq)

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_042822.1 RefSeqGene

    Range
    5001..47481
    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/Swiss-Prot
    Q9H3H1
    UniProtKB/TrEMBL
    Q53F11
    Related
    ENSP00000361905.1, OTTHUMP00000010833, ENST00000372818.5, OTTHUMT00000025628
    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/Swiss-Prot
    Q9H3H1
    UniProtKB/TrEMBL
    Q53F11
    Related
    ENSP00000388333.2, OTTHUMP00000010834, ENST00000441669.6, OTTHUMT00000025629
    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_017646.5NP_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, AY702933, BE294565
    Consensus CDS
    CCDS30681.1
    UniProtKB/Swiss-Prot
    Q9H3H1
    UniProtKB/TrEMBL
    Q3T7C7, Q53F11
    Related
    ENSP00000321810.5, OTTHUMP00000010832, ENST00000316891.9, OTTHUMT00000025627
    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, OTTHUMT00000025630
  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: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

    Range
    39841031..39883511 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006710706.1XP_006710769.1  tRNA dimethylallyltransferase isoform X2

    See identical proteins and their annotated locations for XP_006710769.1

    UniProtKB/Swiss-Prot
    Q9H3H1
    Conserved Domains (2) summary
    smart00451
    Location:254285
    ZnF_U1; U1-like zinc finger
    pfam01715
    Location:12192
    IPPT; IPP transferase
  2. XM_005270954.2XP_005271011.1  tRNA dimethylallyltransferase isoform X1

    Conserved Domains (2) summary
    smart00451
    Location:314345
    ZnF_U1; U1-like zinc finger
    pfam01715
    Location:1252
    IPPT; IPP transferase

RNA

  1. XR_946672.2 RNA Sequence

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