The description of the protein encoded in this ORF: v-myb myeloblastosis viral oncogene homolog
The translational frameshift (ribosome slippage) involved: 0
The ribosome read-through involved: no
The alternative forms of this protein occur by the alternative initiation of translation: not tested
The ORF absolute position (the base range includes START and STOP codons or their equivalents): 200-2122
Several splice variants exist in human. A great survey of them is annotated in GI:1872199. The same 5'-UTR as
within this IRESite record is present in splice variant 8 (GI:45502008), 8A (GI:45502002), 8B (GI:45502010),
9Ai (GI:45502004), 9Aii (GI:45502006), 10A (GI:45502012), 13A (GI:45502014), 14A (GI:45502016).
Possibility of cryptic promoter presence was excluded by the use of a promoter-less plasmid (Mitchell et al.
(2005), Figure 3D). Possibility of aberrantly spliced products was only studied by Northern blot (Mitchell et
al. (2005), Figure 3C).
The IRES name: MYB Warning: please make ires_name same as the gene_name and optionally append to it coordinates. E.g. when gene/virus name is EMCV-R use EMCV-R_-222_to_-1 or EMCV-R_1-456, etc. but not Emcv-R-... or EMCV-222_to_-1. Please keep case of letters as well. This rewards when searching through the database.
The IRES absolute position (the range includes START and STOP codons or their equivalents): 2-151
How IRES boundaries were determined: experimentally_determined
The sequence of IRES region aligned to its secondary structure (if available):
There is no Vienna RNA package installed on the server or some error/warning messages were output. Due to that maybe we cannot prepare 2D structures for display. The error/warning message was:
ERROR: unbalanced brackets in make_pair_table
Results of mutational IRES analysis were shown in Figure 6A, left column.
ITAF fullname: polypyrimidine tract-binding protein isoform 1
ITAF description (long): polypyrimidine tract-binding protein isoform 1 binds dsRNA with (CCU)n motif where n is at least 3. By SELEX
approach it was found it binds to 5'-CAGCCUGGUGCCUCUCUUUCGG-3' (Singh et al. (1995) Science 268:1173-1176)
but also UCUU or UCUUC within pyrimidine-rich sequence (Perez et al. (1997) RNA3:1334-1347).
3.1.2. Organisms or in vitro systems where this ITAF was functionally studied:
Organism or in vitro system where ITAF was shown:
Necessity of ITAF for translation in this particular organism or system: required_but_available_internally
Method used to demonstrate ITAF effect: in_vivo
The organism where action of this ITAF was studied:
The absolute position of the experimentally mapped region (the range includes START and STOP codons or their equivalents): 2-202
The underlying nucleic acid sequence and structure of the mapped region:
Rendering structure of c-myb mRNA 201 nt long with energy of -73.90 kcal/mol as calculated by RNAeval using VARNA Java applet with some IRESite improvements (see VARNA modified by IRESite). Hold left mouse button to move structure parts, hold right mouse button to move whole structure, use mouse wheel to zoom. Right mouse-click opens a menu to export into JPG/SVG and many other options.
Data from Figure 5B(i) based on Supplementary material B, part B(i).