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)

9 rows where transcript_id = 29769651

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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
166399234 GT-AG 0 1.000000099473604e-05 1459 rna-XM_037463921.1 29769651 1 3276134 3277592 Pungitius pungitius 134920 AAG|GTAAGGGCCC...GTATCCTTGTCT/TGTCTTCTCACC...TGCAG|CTG 0 1 2.067
166399235 GT-AG 0 0.0002967825423515 896 rna-XM_037463921.1 29769651 2 3277739 3278634 Pungitius pungitius 134920 ATT|GTAAGTTCAC...TTCATCTTGATT/AAAGATTTCATT...CACAG|GAG 2 1 4.462
166399236 GT-AG 0 1.000000099473604e-05 105 rna-XM_037463921.1 29769651 3 3278717 3278821 Pungitius pungitius 134920 CAG|GTGAGCATGA...ATAGTCTTGAAA/ATAGTCTTGAAA...TTCAG|GAA 0 1 5.807
166399237 GT-AG 0 1.000000099473604e-05 228 rna-XM_037463921.1 29769651 4 3278958 3279185 Pungitius pungitius 134920 AAG|GTAGGTGACA...GGCTCTTTGCCG/CTCTGTCTCTCT...CTCAG|TTG 1 1 8.038
166399238 GT-AG 0 1.000000099473604e-05 101 rna-XM_037463921.1 29769651 5 3279389 3279489 Pungitius pungitius 134920 GAG|GTGGGTGGAG...TTGCTTCTATTG/ACGCGAGTTATT...TTCAG|GTG 0 1 11.368
166399239 GT-AG 0 1.000000099473604e-05 79 rna-XM_037463921.1 29769651 6 3279627 3279705 Pungitius pungitius 134920 GTG|GTAAGTGAAC...CAGTTTATAACA/CAGTTTATAACA...TGCAG|TGA 2 1 13.615
166399240 GT-AG 0 1.000000099473604e-05 88 rna-XM_037463921.1 29769651 7 3279848 3279935 Pungitius pungitius 134920 GAG|GTGAGACAGT...TTGTTTTTACCT/TTTGTTTTTACC...CCCAG|CTT 0 1 15.945
166399241 GT-AG 0 1.000000099473604e-05 113 rna-XM_037463921.1 29769651 8 3280218 3280330 Pungitius pungitius 134920 CAG|GTAGAGCACC...TAATCCATATTT/CAGTTGATAATC...CTTAG|GTC 0 1 20.571
166399242 GT-AG 0 1.000000099473604e-05 130 rna-XM_037463921.1 29769651 9 3285162 3285291 Pungitius pungitius 134920 AGG|GTGAGTGTCT...CCCCCCTTCTTC/GTTGTGCTTACG...TGCAG|GAA 1 1 99.82

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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]);