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)

8 rows where transcript_id = 13210816

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
70382058 GT-AG 0 1.000000099473604e-05 2811 rna-XM_027885119.1 13210816 1 2772657 2775467 Empidonax traillii 164674 CCG|GTGGGTGGGC...AGCTTCTTATGT/CAGCTTCTTATG...TTCAG|GTG 1 1 5.164
70382059 GT-AG 0 0.0037197939272642 1622 rna-XM_027885119.1 13210816 2 2770904 2772525 Empidonax traillii 164674 GAG|GTACTTTTCA...TTTTTTTTAAAT/TTTTTTTTAAAT...AATAG|GAC 0 1 17.465
70382060 GT-AG 0 1.000000099473604e-05 1163 rna-XM_027885119.1 13210816 3 2769612 2770774 Empidonax traillii 164674 AAT|GTGAGTATCC...CCTTGTTTAACC/CCTTGTTTAACC...TCCAG|GCT 0 1 29.577
70382061 GT-AG 0 1.000000099473604e-05 194 rna-XM_027885119.1 13210816 4 2769322 2769515 Empidonax traillii 164674 GAA|GTGAGTATTG...TGTCACTAAGCA/TCTGTTGTCACT...TGCAG|AGG 0 1 38.592
70382062 GT-AG 0 1.000000099473604e-05 323 rna-XM_027885119.1 13210816 5 2768861 2769183 Empidonax traillii 164674 GAG|GTAAAAAAAT...ACTACCTTAGGT/TTAGGTTTCATC...CCCAG|GTT 0 1 51.549
70382063 GT-AG 0 2.98693797651542e-05 434 rna-XM_027885119.1 13210816 6 2768373 2768806 Empidonax traillii 164674 CTG|GTAAGTTTTT...AATTTCTTTCTG/TATGAATTAATT...CAAAG|CTG 0 1 56.62
70382064 GT-AG 0 0.0330649045202077 766 rna-XM_027885119.1 13210816 7 2767457 2768222 Empidonax traillii 164674 AAG|GTATGTTTTT...AGGTTTTTAATT/AGGTTTTTAATT...TCCAG|TTT 0 1 70.704
70382065 GT-AG 0 1.000000099473604e-05 512 rna-XM_027885119.1 13210816 8 2766828 2767339 Empidonax traillii 164674 CAG|GTAGTAGAGG...TTCACTCTGAAG/TGCGAGTTCACT...TTCAG|AGC 0 1 81.69

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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]);