IRESite record type: plasmid_with_promoter_and_putative_IRES_without_translational_characterization
The shape of the nucleic acid molecule translated: linear
The quality of the mRNA/+RNA sequence: 3UTR_incomplete
The mRNA/+RNA description:
Bicistronic in vivo transcript mRNA with 5' region (nt 18 of the 5' UTR to nt 15 of the core coding protein)
of Hepatitis C virus (HCV) type 1a cloned between renilla and firefly luciferase.
The mRNA/+RNA sequence represented in the +DNA notation:
Credibility of mRNA sequence: guessed_as_the_sequence_was_never_published_by_authors_nor_described_in_sufficient_detail
The description of the protein encoded in this ORF: firefly luciferase
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: no
The ORF absolute position (the base range includes START and STOP codons or their equivalents): 1302-2951
Remarks:
This plasmid was used as the positive control for experiments in article Translation efficiencies of the 5'
untranslated region from representatives of the six major genotypes of hepatitis C virus using a novel
bicistronic reporter assay system (Collier et al., 1998; PMID:9780040).
This item is labeled as 3'UTR incomplete because the mRNA sequence deposited here ends at the stop codon of
the second cistron.
The IRES absolute position (the range includes START and STOP codons or their equivalents): 957-1295
How IRES boundaries were determined: experimentally_determined
5'-end of IRES relative to last base of the STOP codon of the upstream ORF: 7
3'-end of IRES relative to last base of the STOP codon of the upstream ORF: 345
5'-end of IRES relative to first base of the START codon of the downstream ORF: -345
3'-end of IRES relative to first base of the START codon of the downstream ORF: -7
The sequence of IRES region aligned to its secondary structure (if available):
Remarks:
HCV UTR (324 nt) and open reading frame (15 nt)
Possible typo error in the IRES sequence within first 18 nt of IRES: GGCGACACTCCACCATGA where trailing TGA
might be TAG instead.