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 = 22631613

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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
122792140 GT-AG 0 1.000000099473604e-05 90 rna-XM_009420627.2 22631613 1 22208668 22208757 Musa acuminata 4641 GAG|GTGAAGTCAT...ATACTTATAATT/ATCATACTTATA...TGTAG|GCC 0 1 37.519
122792141 GT-AG 0 3.863104485405539e-05 5706 rna-XM_009420627.2 22631613 2 22202290 22207995 Musa acuminata 4641 GAG|GTAAACATCA...GTTGCATTAGTT/TAGTTACTTATT...TTCAG|GTT 0 1 54.566
122792142 GT-AG 0 1.000000099473604e-05 116 rna-XM_009420627.2 22631613 3 22201679 22201794 Musa acuminata 4641 CAG|GTCTGAAATT...GTTCTTTTGATC/GTTCTTTTGATC...TATAG|GAA 0 1 67.123
122792143 GT-AG 0 0.0001037447429337 542 rna-XM_009420627.2 22631613 4 22201045 22201586 Musa acuminata 4641 CTG|GTATTGGTCT...TTTGTTGTGACC/TTTGTTGTGACC...AACAG|TTA 2 1 69.457
122792144 GT-AG 0 9.832937830311156e-05 85 rna-XM_009420627.2 22631613 5 22200872 22200956 Musa acuminata 4641 CAG|GTCTGATTTC...TAATTCTTATTG/ATAATTCTTATT...TACAG|AGA 0 1 71.689
122792145 GT-AG 0 5.336266699472331e-05 97 rna-XM_009420627.2 22631613 6 22200660 22200756 Musa acuminata 4641 AGG|GTCTGTCTCT...TTTTCTTTTGTA/TTTGTATTTACA...GGCAG|CTA 1 1 74.607
122792146 GT-AG 0 1.000000099473604e-05 81 rna-XM_009420627.2 22631613 7 22200449 22200529 Musa acuminata 4641 AAG|GTGAGTTTTA...ATACCCTTTTTT/TGGATTTTCAAT...TACAG|AGG 2 1 77.905
122792147 GT-AG 0 0.0002225072017476 1032 rna-XM_009420627.2 22631613 8 22199242 22200273 Musa acuminata 4641 CAG|GTATGCCACC...TTTTCCTCACAA/AAAATTCTCATT...TACAG|GAT 0 1 82.344

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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]);