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
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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
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
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
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- Definition / Synonyms
- Definition / Synonyms
- Relationships
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- Cross-references
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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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