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 = 22631591

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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
122791884 GT-AG 0 2.353651595808843e-05 211 rna-XM_009390300.2 22631591 4 3857681 3857891 Musa acuminata 4641 AAG|GTCTGTAACT...AAAATTTTAACT/AAAATTTTAACT...AACAG|ACA 1 1 7.384
122791885 GT-AG 0 1.000000099473604e-05 228 rna-XM_009390300.2 22631591 5 3859781 3860008 Musa acuminata 4641 CAG|GTAAAATATC...CTGATTTTGATG/CTGATTTTGATG...ATCAG|GTG 0 1 40.594
122791886 GT-AG 0 0.0001515170334088 343 rna-XM_009390300.2 22631591 6 3861986 3862328 Musa acuminata 4641 GAG|GTAAACATTT...CAAGTTTTAACA/CAAGTTTTAACA...TTCAG|GAT 0 1 75.352
122802389 GT-AG 0 1.000000099473604e-05 93 rna-XM_009390300.2 22631591 1 3856262 3856354 Musa acuminata 4641 GAG|GTGGGAAGAC...CTCTTCTTGCCC/CTCTGATTCAGC...GGCAG|CGC   0 2.18
122802390 GT-AG 0 0.008150679772294 800 rna-XM_009390300.2 22631591 2 3856486 3857285 Musa acuminata 4641 TCG|GTATTTTCCC...TTGGTTGTATCT/GGGGTTTTCACC...AACAG|GTA   0 4.483
122802391 GT-AG 0 4.381219982291602e-05 88 rna-XM_009390300.2 22631591 3 3857351 3857438 Musa acuminata 4641 AAG|GTACTGTTTA...ATTTTCTGGAAC/CTAATGCTCATG...GCTAG|GTA   0 5.626
122802392 GT-AG 0 0.0003065714636436 379 rna-XM_009390300.2 22631591 7 3863448 3863826 Musa acuminata 4641 CTG|GTAATCATCT...CTCACTTTGATG/TCATTTCTCACT...TGTAG|ATA   0 95.025

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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]);