introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

7 rows where transcript_id = 11478705

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
63113060 GT-AG 0 0.0459909645366133 62 rna-DGYR_LOCUS103 11478705 3 569598 569659 Dimorphilus gyrociliatus 2664684 GCA|GTATGTAAAC...ATTTCTTTAAAT/ATTTCTTTAAAT...AACAG|ATA 1 1 42.701
63113061 GT-AG 0 1.000000099473604e-05 64 rna-DGYR_LOCUS103 11478705 4 569420 569483 Dimorphilus gyrociliatus 2664684 GAA|GTAAGTACCC...AACATTTTATCA/TTTATGTTCAAT...GATAG|AAT 1 1 45.895
63113062 GT-AG 0 0.044708858962381 90 rna-DGYR_LOCUS103 11478705 5 569227 569316 Dimorphilus gyrociliatus 2664684 AAT|GTATATATAT...TTTTCTTTCACT/TTTTCTTTCACT...TACAG|ATT 2 1 48.781
63113063 GT-AG 0 0.0013545010241672 8418 rna-DGYR_LOCUS103 11478705 6 560357 568774 Dimorphilus gyrociliatus 2664684 ATA|GTAAGCATCT...AACACCTTACCT/TCTTGTTTAATA...TGTAG|ATA 1 1 61.446
63113064 GT-AG 0 1.000000099473604e-05 72 rna-DGYR_LOCUS103 11478705 7 559125 559196 Dimorphilus gyrociliatus 2664684 AAC|GTGAGTAGGG...CAATTTTTAAAA/ATAATTATCACT...TCCAG|GCT 0 1 93.948
63116341 GT-AG 0 1.000000099473604e-05 101 rna-DGYR_LOCUS103 11478705 1 571282 571382 Dimorphilus gyrociliatus 2664684 GAG|GTAAGAAAGT...GACTTTTTAATG/ATTTAATTTATT...AATAG|AAA   0 1.877
63116342 GT-AG 0 1.0780374900303635e-05 160 rna-DGYR_LOCUS103 11478705 2 570998 571157 Dimorphilus gyrociliatus 2664684 AGG|GTCAGTTTTT...TGTTTTTTATCC/TTGTTTTTTATC...AACAG|AAA   0 5.352

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);