Rice gene details
Searching for LOC_Os05g48010 [MYB family transcription factor, putative, expressed ]
Basic information [Pfam DB] Graphical representation of the protein domains
S. No. Locus Id Protein Length Doman Start Domain End Pfam ID Domain Name
1 LOC_Os05g48010.1 290 14 62 PF00249.23 Myb_DNA-binding
2 LOC_Os05g48010.1 290 68 113 PF00249.23 Myb_DNA-binding
  The basic information is from RGAP and Pfam/InterPro databases

Gene model (download)
IR64 N22
Gene Expression (RNASeq data) in two varieties N22 & IR64 [FC=Fold Change]
N22 Flag-leaf FC
  3
N22InfloresenceFC
  -1
N22 Root FC
  -19
IR64 Flag-leaf FC
  -1
IR64InfloresenceFC
  1
IR64 Root FC
  -4

Functional details
Molecular Function
S. No. GO Id GO Description
1 GO:0016563 transcription activator activity  
2 GO:0003677 DNA binding (RGAP)
3 GO:0003700 sequence-specific DNA binding transcription factor activity (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0009408 response to heat  
2 GO:0009058 biosynthetic process (RGAP)
3 GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolic process (RGAP)
Cellular component
S. No. GO Id GO Description

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007173 warm/hot temperature regimen (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 AQFP018 culm strength
2 AQDZ002 lodging incidence
3 AQDZ013 lodging incidence
4 CQAS53 plant height
5 AQX002 primary branch
6 AQAP043 brown planthopper resistance
7 AQCE028 primary branch length
8 AQCU197 plant height
9 AQCU212 leaf length
10 AQFW218 leaf width
11 AQBV012 leaf angle
12 AQBV013 tiller angle
13 AQBV014 leaf angle
14 AQEP005 seedling vigor
15 AQDX008 osmotic adjustment capacity
16 CQAS54 days to heading
17 AQCO121 spikelet fertility
18 CQR3 milled rice ratio
19 AQEJ056 leaf length to width ratio
20 AQEJ058 leaf length
21 AQEJ060 leaf perimeter
22 AQAN001 drought tolerance
23 AQAC019 biomass yield
24 AQAC030 root length
25 AQAG005 grain yield
26 AQAG012 tiller number
27 AQGI046 root dry weight
28 AQGI175 biomass yield
29 AQGI188 biomass yield
30 AQGI229 total biomass yield
31 AQHR017 tiller number
32 AQHR018 tiller number
33 CQAS57 panicle number

Plant developmental stage / tissue details
Plant development stage
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 MCP:1000288 7 days post-anthesis stage (+)
2 MCP:1000436 14 days post-anthesis stage (+)
3 MCP:1000518 seedling development stage (+)
4 PO:0007014 booting (+)
5 PO:0007017 C senescence (+)
6 PO:0007031 FR.02 mid stage of fruit ripening (+)
7 PO:0007035 7-8 fruit formation and maturation (+)
8 PO:0007041 inflorescence emergence from flag leaf sheath (+)
9 PO:0007042 5 fruit formation (+)
10 PO:0007050 FR.03 late stage of fruit ripening (+)
11 PO:0007057 0 germination (+)
12 PO:0007073 2 formation of axillary shoot (+)
13 PO:0007616 4 anthesis (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 PO:0000001 embryo proper (+)
2 PO:0000003 whole plant (+)
3 PO:0005360 aleurone layer (+)
4 PO:0008037 seedling (+)
5 PO:0009005 root (+)
6 PO:0009006 shoot system (+)
7 PO:0009010 seed (+)
8 PO:0009025 vascular leaf (+)
9 PO:0009047 stem (+)
10 PO:0009049 inflorescence (+)
11 PO:0009088 seed coat (+)
12 PO:0009089 endosperm (+)
13 PO:0025075 non-vascular leaf (+)
Others
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
Not found

Trait details
S. No. TO Id TO Description Presence(+) or absence(-) of gene expression /activity
1 MCT:1000007 root biomass (+)
2 MCT:1000008 shoot biomass (+)
3 MCT:1000460 plant dry weight reduction (+)
4 MCT:1000461 yield reduction (+)
5 MCT:1000462 glutamic acid content (+)
6 MCT:1000463 gamma aminobutyric acid (GABA) content (+)
7 MCT:1000464 arginine content (+)
8 TO:0000207 plant height (+)
9 TO:0001007 coleoptile length (+)
10 TO:0002673 amino acid content (+)
11 TO:0002689 leaf sheath length (+)

Physical interaction details
Interaction type: protein-protein
Not found
Interaction type: protein-DNA
S. No. Primary rice gene loci

Interacting rice gene loci

Experiment type

Id

Domain name/N or C term

 Amino acid involved in interaction

Id

Domain name/N or C term

 Bases
involved in interaction		 Reference point cis-elements [PLACE Id]
1 LOC_Os05g48010 - --- LOC_Os02g47850 - 460 - - Protein-DNA interaction analysis : Electrophoretic Mobility Shift Assay (EMSA)
2 LOC_Os05g48010 - --- LOC_Os03g12290 - 1079 - - Protein-DNA interaction analysis : Electrophoretic Mobility Shift Assay (EMSA)
3 LOC_Os05g48010 - --- LOC_Os03g13300 - 554 - - Protein-DNA interaction analysis : Electrophoretic Mobility Shift Assay (EMSA)
      TSS - Transcriptional start site
TrSS - Translational start site		 TSS-Pu - Putative TSS by cDNA alignment
TSS-P - Predicted TSS
Related publications [Sorted by year]

1  El-Kereamy Ashraf; Bi Yong-Mei; Ranathunge Kosala; Beatty Perrin H; Good Allen G; Rothstein Steven J; The Rice R2R3-MYB Transcription Factor OsMYB55 Is Involved in the Tolerance to High Temperature and Modulates Amino Acid Metabolism. PloS one 2012:7
PMID [23251677]


Department of Plant Molecular Biology, University of Delhi South Campus, New Delhi-110021, India