This term is obsolete.
The term 'RNA editing' (GO:0016547) was merged into 'RNA modification' (GO:0009451) on the basis of statements in the preface of Modification and Editing of RNA (ISBN:1555811337) that there is no clear distinction between modification and editing. Parallel changes were made for substrate (e.g. tRNA, rRNA, etc.) specific child terms of 'RNA editing'.

GO:0006400 JSON

tRNA modification

Biological Process

Definition (GO:0006400 GONUTS page)

The covalent alteration of one or more nucleotides within a tRNA molecule to produce a tRNA molecule with a sequence that differs from that coded genetically.

Comments

The term 'RNA editing' (GO:0016547) was merged into 'RNA modification' (GO:0009451) on the basis of statements in the preface of Modification and Editing of RNA (ISBN:1555811337) that there is no clear distinction between modification and editing. Parallel changes were made for substrate (e.g. tRNA, rRNA, etc.) specific child terms of 'RNA editing'.

Secondary IDs

GO:0016549

2,543,089 annotations

Synonyms

Synonyms are alternative words or phrases closely related in meaning to the term name, with indication of the relationship between the name and synonym given by the synonym scope.

Synonym Type
tRNA editing narrow

Ancestor Chart

Ancestor chart for GO:0006400
Chart options
Ancestor chart

Child Terms

This table lists all terms that are direct descendants (child terms) of GO:0006400

Child Term Relationship to
GO:0006400
tRNA acetylation
is_a
charged-tRNA amino acid modification
is_a
tRNA dihydrouridine synthesis
is_a
tRNA methylation
is_a
tRNA seleno-modification
is_a
archaeosine-tRNA biosynthetic process
is_a
tRNA threonylcarbamoyladenosine modification
is_a
tRNA pseudouridine synthesis
is_a
mitochondrial tRNA modification
is_a
tRNA adenosine deamination to inosine
is_a

Annotation Blacklist

This list aims to correct incorrect annotations to UniProtKB accessions inferred from electronic annotation (IEA) methods that are supplied by the UniProt-GOA project to the GO Consortium:

Category Entity Type Entity ID Taxon ID Entity Name Ancestor GO ID Reason Rule/Method ID
NOT-qualified manual protein F4IL30 3702 POP1_ARATH GO:0008033 1 NOT-qualified manual annotation exists with evidence code ECO:0000315 from this reference: PMID:22549728
NOT-qualified manual protein O14133 284812 ATE1_SCHPO GO:0006399 1 NOT-qualified manual annotation exists with evidence code ECO:0000303 from this reference: GO_REF:0000051
NOT-qualified manual protein Q9SB36 3702 PP337_ARATH GO:0009451 1 NOT-qualified manual annotation exists with evidence code ECO:0000315 from this reference: PMID:21288264
NOT-qualified manual protein Q9ZW76 3702 POP4_ARATH GO:0008033 1 NOT-qualified manual annotation exists with evidence code ECO:0000315 from this reference: PMID:22549728

Cross-references

Database ID Description
InterPro IPR002616 tRNA-guanine(15) transglycosylase-like
InterPro IPR003358 tRNA (guanine-N-7) methyltransferase, Trmb type
InterPro IPR004520 tRNA modification GTPase MnmE
InterPro IPR004804 tRNA-guanine(15) transglycosylase
InterPro IPR005839 Methylthiotransferase
InterPro IPR005912 tRNA pseudouridine synthase, Pus10
InterPro IPR006463 tRNA-2-methylthio-N(6)-dimethylallyladenosine synthase MiaB
InterPro IPR007537 tRNAHis guanylyltransferase Thg1
InterPro IPR010386 tRNA-hydroxylase MiaE
InterPro IPR022380 Glutamyl-Q tRNA(Asp) synthetase

Replaces

This term can be used instead of these obsolete terms:

GO Identifier GO Term Name Reason
GO:0002195 obsolete 2-methylthio-N-6-(cis-hydroxy)isopentenyl adenosine-tRNA biosynthesis consider GO:0006400

Co-occurring Terms

These tables show the number of times the term listed in the table has been co-annotated.

No co-occurrence statistics for GO:0006400 based on ALL annotations
The top 100 of 1,525 co-occurring terms
Co-occurring Term PR S% #Together #Compared
tRNA modification
299.73 100.00 650,376 650,376
tRNA processing
84.54 25.88 493,096 1,748,269
queuosine biosynthetic process
172.02 15.56 114,412 199,359
methylthiotransferase activity
280.80 12.56 82,397 87,954
tRNA wobble guanine modification
267.81 11.24 74,113 82,947
tRNA methylation
79.06 9.55 84,644 320,887
tRNA methylthiolation
240.11 8.39 55,720 69,556
tRNA dimethylallyltransferase activity
296.34 7.97 51,851 52,444
tRNA (guanine-N7)-methylation
298.29 6.79 44,176 44,390
mRNA pseudouridine synthesis
214.01 6.76 45,164 63,254
Totals 5218595 208719824
No co-occurrence statistics for GO:0006400 based on MANUAL annotations
The top 100 of 268 co-occurring terms
Co-occurring Term PR S% #Together #Compared
tRNA modification
1,152.36 100.00 1,121 1,121
tRNA dimethylallyltransferase activity
1,152.36 44.87 503 503
cytokinin biosynthetic process
510.63 23.33 370 835
tRNA methyltransferase complex
397.23 7.69 101 293
mRNA pseudouridine synthesis
252.75 7.66 118 538
elongator holoenzyme complex
204.77 6.04 94 529
pseudouridine synthase activity
86.23 4.57 118 1,577
AMP dimethylallyltransferase activity
976.58 4.42 50 59
tRNA-uridine aminocarboxypropyltransferase activity
1,152.36 3.75 42 42
tRNA binding
52.66 3.22 110 2,407
Totals 4203 388120

Change Log

Timestamp Action Category Detail
2020-02-28 Deleted XREF MIPS_funcat:11.06.02
2019-05-04 Added XREF MIPS_funcat:11.06.02
2010-04-16 Deleted SYNONYM tRNA editing
2010-04-16 Added SYNONYM tRNA editing
2008-05-13 Added DEFINITION The covalent alteration of one or more nucleotides within a tRNA molecule to produce a tRNA molecule with a sequence that differs from that coded genetically.
2008-05-12 Deleted DEFINITION The covalent alteration of one or more nucleotides within a tRNA molecule to produce a tRNA molecule with a sequence that differs from that coded genetically.
2008-04-01 Updated RELATION is a GO:0008033 (tRNA processing)
2008-04-01 Updated RELATION is a GO:0009451 (RNA modification)
2007-08-09 Deleted SYNONYM tRNA editing
2007-08-09 Added SYNONYM tRNA editing
Timestamp Action Category Detail
2002-02-06 Updated TERM tRNA modification
2001-04-03 Updated TERM tRNA modification
2001-03-30 Added TERM tRNA modification
Timestamp Action Category Detail
2010-04-16 Deleted SYNONYM tRNA editing
2010-04-16 Added SYNONYM tRNA editing
2008-05-13 Added DEFINITION The covalent alteration of one or more nucleotides within a tRNA molecule to produce a tRNA molecule with a sequence that differs from that coded genetically.
2008-05-12 Deleted DEFINITION The covalent alteration of one or more nucleotides within a tRNA molecule to produce a tRNA molecule with a sequence that differs from that coded genetically.
2007-08-09 Deleted SYNONYM tRNA editing
2007-08-09 Added SYNONYM tRNA editing
2007-07-29 Added SYNONYM tRNA editing
2007-07-27 Updated DEFINITION The covalent alteration of one or more nucleotides within a tRNA molecule to produce a tRNA molecule with a sequence that differs from that coded genetically.
2006-03-15 Updated DEFINITION The covalent alteration of one or more nucleotides within tRNA, resulting in a change in the properties of the tRNA.
2002-11-27 Updated DEFINITION The enzymatic modification of the chemical structure of specific sites in tRNA.
2001-08-06 Added DEFINITION The enzymatic modification of the chemical structure of specific sites in tRNA.
Timestamp Action Category Detail
2008-04-01 Updated RELATION is a GO:0008033 (tRNA processing)
2008-04-01 Updated RELATION is a GO:0009451 (RNA modification)
Timestamp Action Category Detail
2020-02-28 Deleted XREF MIPS_funcat:11.06.02
2019-05-04 Added XREF MIPS_funcat:11.06.02
Timestamp Action Category Detail
2007-07-29 Added SECONDARY GO:0016549 (tRNA editing)
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