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 = 34283737

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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
192054020 GT-AG 0 1.4603474741566772e-05 3550 rna-XM_014880025.1 34283737 1 7682402 7685951 Sturnus vulgaris 9172 AAG|GTCCTCAACT...CTTACTTTATCA/AACTGTCTAACT...TTCAG|GTC 2 1 5.701
192054021 GT-AG 0 0.0001099443507747 70171 rna-XM_014880025.1 34283737 2 7687045 7757215 Sturnus vulgaris 9172 ACA|GTAAGTCTTG...ATTTCTTTCTCT/TTGCAGTTTACT...TCCAG|TTT 0 1 53.264
192054022 GT-AG 0 1.000000099473604e-05 1532 rna-XM_014880025.1 34283737 3 7757378 7758909 Sturnus vulgaris 9172 ACT|GTAAGGACAC...GTAGTTTTATCC/AGTAGTTTTATC...TTTAG|AAA 0 1 60.313
192054023 GT-AG 0 0.0002843805630875 16014 rna-XM_014880025.1 34283737 4 7759021 7775034 Sturnus vulgaris 9172 AAG|GTAATTTTTC...TTCGTTTTAATT/TTCGTTTTAATT...TTCAG|TTG 0 1 65.144
192054024 GT-AG 0 3.742220966868011e-05 9380 rna-XM_014880025.1 34283737 5 7775177 7784556 Sturnus vulgaris 9172 CAG|GTATAGACTA...TGAGTTTTATTC/ATGAGTTTTATT...TTCAG|CAG 1 1 71.323
192054025 GT-AG 0 1.000000099473604e-05 3081 rna-XM_014880025.1 34283737 6 7784717 7787797 Sturnus vulgaris 9172 GAG|GTAAGACCCT...TTTGTTTTGAAC/TTTGTTTTGAAC...TTTAG|ATT 2 1 78.285
192054026 GT-AG 0 1.000000099473604e-05 7224 rna-XM_014880025.1 34283737 7 7787980 7795203 Sturnus vulgaris 9172 AGG|GTAAGAAGGA...CTATCCTTTATG/CTTATACTGATG...TCTAG|GTT 1 1 86.205
192054027 GT-AG 0 1.000000099473604e-05 1171 rna-XM_014880025.1 34283737 8 7795384 7796554 Sturnus vulgaris 9172 AAG|GTAAATAACA...TGCTTATTAACT/TGCTTATTAACT...CCCAG|TGT 1 1 94.038

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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]);