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 = 19748963

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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
105761752 GT-AG 0 1.000000099473604e-05 2562 rna-XM_007445558.1 19748963 1 716786 719347 Lipotes vexillifer 118797 CAG|GTGAGACAAT...CAGCTTGTAAAA/TGTAAAATTATC...TTTAG|GTT 2 1 5.179
105761753 GT-AG 0 1.000000099473604e-05 50534 rna-XM_007445558.1 19748963 2 719464 769997 Lipotes vexillifer 118797 GAG|GTAAAAATAG...TTCTCATTATAT/GTGGTTCTCATT...ACCAG|ACA 1 1 13.64
105761754 GT-AG 0 1.000000099473604e-05 22047 rna-XM_007445558.1 19748963 3 770066 792112 Lipotes vexillifer 118797 ATG|GTGAGTTTTT...TCTATTTTATAT/ATTATTTTCAAA...TTCAG|GAA 0 1 18.6
105761755 GT-AG 0 0.0029570101228922 1804 rna-XM_007445558.1 19748963 4 792334 794137 Lipotes vexillifer 118797 GAG|GTATGTGTTC...TTTATCTTGACT/TTTATCTTGACT...TTTAG|GCT 2 1 34.719
105761756 GT-AG 0 0.0003055582849515 4736 rna-XM_007445558.1 19748963 5 794221 798956 Lipotes vexillifer 118797 GCT|GTAAGTATGG...TAGTTCTTACTA/TTTTTCCTGATT...TACAG|ATG 1 1 40.773
105761757 GT-AG 0 1.000000099473604e-05 1029 rna-XM_007445558.1 19748963 6 799101 800129 Lipotes vexillifer 118797 CAG|GTTAGTAAAA...AGCTTCTTAAAT/AAACTATTGACT...TCTAG|GTG 1 1 51.276
105761758 GT-AG 0 1.000000099473604e-05 32409 rna-XM_007445558.1 19748963 7 800283 832691 Lipotes vexillifer 118797 TTG|GTGAGTGAAT...TATTTGTTGATG/TATTTGTTGATG...TGCAG|GAG 1 1 62.436
105761759 GT-AG 0 0.0074656193150363 9598 rna-XM_007445558.1 19748963 8 832910 842507 Lipotes vexillifer 118797 ACT|GTTCCTCAAA...ATTCTGTTAATT/ATTCTGTTAATT...AATAG|AAA 0 1 78.337

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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]);