Identification of novel conserved peptide uORF homology groups in Arabidopsis and rice reveals ancient eukaryotic origin of select groups and preferential association with transcription factor-encoding genes

Hayden, Celine A; Jorgensen, Richard A

doi:10.1186/1741-7007-5-32

Table 3 Rice loci with conserved peptide uORFs identified from Arabidopsis-rice comparison

From: Identification of novel conserved peptide uORF homology groups in Arabidopsis and rice reveals ancient eukaryotic origin of select groups and preferential association with transcription factor-encoding genes

Homology group	Locus	mORF description	Gene ontology molecular function
1	LOC_Os02g03960	bZIP	DNA binding, transcription factor
1	LOC_Os09g13570	bZIP	DNA binding, transcription factor
1	LOC_Os05g03860	bZIP	DNA binding, transcription factor
1	LOC_Os03g19370	bZIP	DNA binding, transcription factor
1	LOC_Os12g37410	bZIP	DNA binding, transcription factor
2	LOC_Os12g06330	bHLH	Transcription factor
3	LOC_Os02g39790	AdoMetDC	AdoMetDC activity
3	LOC_Os04g42090	AdoMetDC	AdoMetDC activity
3	LOC_Os09g25620	AdoMetDC	AdoMetDC activity
4	LOC_Os02g01360	Expressed transcript	Unknown
5	LOC_Os02g01240, 133165–133284*	Ankyrin repeat	Protein binding, Acyl CoA binding
6	LOC_Os04g53190, 31234580–31234757*	Amine oxidase	Amine oxidase
7	LOC_Os09g15770	IF2B and IF5 domains	Translation initiation
7	LOC_Os06g48350	IF2B and IF5 domains	Translation initiation
8	LOC_Os10g26140	Similar to Mic-1	Unknown
9	LOC_Os04g38520	Expressed transcript	Transcription factor
9	LOC_Os02g36590, 22043438–22043536*	Expressed transcript	Transcription factor
9	LOC_Os01g43370	Expressed transcript	Transcription factor
9	LOC_Os02g15880, 8987945–8988028*	Expressed transcript	Transcription factor
10	LOC_Os06g02550	Protein kinase	Kinase activity
10	LOC_Os02g47220, 28767408–28767530*	Protein kinase	Kinase activity
11	LOC_Os02g44230	TPPase	Trehalose phosphatase
11	LOC_Os10g40550	TPPase	Trehalose phosphatase
12	LOC_Os02g21920	Expressed transcript	Unknown
13	LOC_Os01g50030	Methyltransferase	Phosphoethanolamine N-methyltransferase activity
13	LOC_Os05g47540	Methyltransferase	Phosphoethanolamine N-methyltransferase activity
14	LOC_Os08g32080, 19755174–19755260*	Homeobox	DNA binding, transcription factor, protein binding
15	LOC_Os02g21090	bHLH	Transcription factor
15	LOC_Os01g43680, 25011025–25012089*	bHLH	Transcription factor
15	LOC_Os03g39432, 21870203–21870427* (LOC_Os03g39432 v.4 TIGR annotation)	bHLH	Transcription factor
15	LOC_Os03g27390	bHLH	Unknown
16	LOC_Os11g02300	Protein kinase	Protein kinase
17	LOC_Os07g42830, 25650516–25650623* (LOC_Os0742834 v.4 TIGR annotation)	Expressed transcript	Unknown
17	LOC_Os02g52300	Expressed transcript	Unknown
18	LOC_Os09g28350 (LOC_Os09g28354 v.4 TIGR annotation)	Heat shock factor	DNA binding, transcription factor
19	LOC_Os10g36700 (LOC_Os10g36699 v.4 TIGR annotation)	Auxin responsive	Unknown

All locus identifiers based on version 3 TIGR pseudomolecule assembly except where noted. AdoMetDC, S-Adenosylmethionine decarboxylase; TPPase, Trehalose-6-phosphate phosphatase.
*Locus numbers indicate mORF location, and coordinates indicate uORF location in intergenic region on the same chromosome.

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ISSN: 1741-7007

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