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 = 29769657

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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
166399383 GT-AG 0 7.855197312375581e-05 2010 rna-XM_037462943.1 29769657 1 141893 143902 Pungitius pungitius 134920 GAG|GTACTGCTTG...GTCACCTTGAAC/TCTGGGGTCACC...TGCAG|CAG 1 1 11.218
166399384 GT-AG 0 1.000000099473604e-05 146 rna-XM_037462943.1 29769657 2 141627 141772 Pungitius pungitius 134920 CAG|GTGATGACAC...GTTCTCTTACAT/TGTTCTCTTACA...CGTAG|CAT 1 1 13.351
166399385 GT-AG 0 1.000000099473604e-05 1139 rna-XM_037462943.1 29769657 3 140387 141525 Pungitius pungitius 134920 ATG|GTGAGTCACA...TCTGCCTTGTCT/TAGTCTCTAAAA...CTCAG|TCC 0 1 15.147
166399386 GT-AG 0 1.000000099473604e-05 319 rna-XM_037462943.1 29769657 4 139806 140124 Pungitius pungitius 134920 CAG|GTGGGGGACT...AGACCTTTGTCT/GAGCTACAGACC...TTCAG|GAG 1 1 19.804
166399387 GT-AG 0 0.0017489564897994 91 rna-XM_037462943.1 29769657 5 139583 139673 Pungitius pungitius 134920 TGG|GTATAAACTC...GTGTCTTTGATT/CTTTGATTCATC...TCCAG|ACA 1 1 22.151
166399388 GT-AG 0 1.000000099473604e-05 75 rna-XM_037462943.1 29769657 6 139215 139289 Pungitius pungitius 134920 CAG|GTCAGTGAAG...ATTTCTGTAACT/ATTTCTGTAACT...TTCAG|GAT 0 1 27.36
166399389 GT-AG 0 1.000000099473604e-05 921 rna-XM_037462943.1 29769657 7 134789 135709 Pungitius pungitius 134920 GAG|GTGAGGGGTA...TACTCTTTGTTT/ATATATGTAAGT...TCCAG|AGG 1 1 89.671
166399390 GT-AG 0 1.000000099473604e-05 525 rna-XM_037462943.1 29769657 8 134200 134724 Pungitius pungitius 134920 CAG|GTAGGACACA...TTGTCCTTAGCT/TAGCTCCTCATG...CTCAG|ATC 2 1 90.809

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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]);