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)

6 rows where transcript_id = 6500022

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
33637406 GT-AG 0 1.000000099473604e-05 1389 rna-XM_005675436.3 6500022 2 116241729 116243117 Capra hircus 9925 AGG|GTGAGTGAGG...TGTACTTTAGTT/CTTTAGTTGACA...TTCAG|GTA 2 1 8.386
33637407 GT-AG 0 1.000000099473604e-05 2265 rna-XM_005675436.3 6500022 3 116243248 116245512 Capra hircus 9925 CAG|GTGAGACTGA...ATTCCTTTGACA/TTTGTGGTAATT...CTTAG|GTC 0 1 9.946
33637408 GT-AG 0 0.0011250744539957 5443 rna-XM_005675436.3 6500022 4 116245904 116251346 Capra hircus 9925 CAG|GTACCTAGAT...TAATTCATGAAG/TCAATTGTCATT...TCTAG|ATA 1 1 14.637
33637409 GT-AG 0 0.0001976985267488 457 rna-XM_005675436.3 6500022 5 116255655 116256111 Capra hircus 9925 CAG|GTATTTGAAA...TAAACTTTGATG/TAAACTTTGATG...ATCAG|GAC 1 1 66.323
33637410 GT-AG 0 5.860642344427891e-05 5686 rna-XM_005675436.3 6500022 6 116257010 116262695 Capra hircus 9925 CAG|GTAAACCATA...ACTCTCTTACCC/CCCTTGCTAATA...CTCAG|AAT 2 1 77.097
33644239 GT-AG 0 1.000000099473604e-05 2207 rna-XM_005675436.3 6500022 1 116239327 116241533 Capra hircus 9925 CAG|GTACTGTCAA...ATATTTATAACT/ATATTTATAACT...TTCAG|GAT   0 6.059

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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]);