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 = 19748962

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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
105761744 GT-AG 0 1.000000099473604e-05 413 rna-XM_007445554.1 19748962 1 209718 210130 Lipotes vexillifer 118797 TTG|GTGAGTTCCC...TGTTTTTTTGTA/TTTTTTTGTATG...TGCAG|TTT 2 1 5.156
105761745 GT-AG 0 1.1421449191954924e-05 14706 rna-XM_007445554.1 19748962 2 210250 224955 Lipotes vexillifer 118797 GGG|GTATGAACGA...TATTTTTTCACA/TATTTTTTCACA...ACTAG|GTC 1 1 12.29
105761746 GT-AG 0 1.232972055486172e-05 1198 rna-XM_007445554.1 19748962 3 225024 226221 Lipotes vexillifer 118797 ATG|GTAGGTATTT...TCATCTGTGATT/CACAAACTAATT...CCTAG|GAA 0 1 16.367
105761747 GT-AG 0 0.000426850092415 176 rna-XM_007445554.1 19748962 4 226443 226618 Lipotes vexillifer 118797 GAG|GTAGTCATTT...TTTTGTTTAATT/TTTTGTTTAATT...CATAG|ACT 2 1 29.616
105761748 GT-AG 0 0.0003470651495113 2589 rna-XM_007445554.1 19748962 5 226702 229290 Lipotes vexillifer 118797 GTT|GTAAGTTACA...GGAGCTTTGAAT/TTGAATCTAACC...TCCAG|ATG 1 1 34.592
105761749 GT-AG 0 1.000000099473604e-05 1409 rna-XM_007445554.1 19748962 6 229435 230843 Lipotes vexillifer 118797 CAG|GTGAGATGTT...GAACCTATAACG/TCATGTTTCATT...CGCAG|GTG 1 1 43.225
105761750 GT-AG 0 1.2601235344369732e-05 6950 rna-XM_007445554.1 19748962 7 230997 237946 Lipotes vexillifer 118797 TCG|GTAATTATAA...TGTCTCTTTGCT/ATTGAAGTAACC...TGAAG|GAA 1 1 52.398
105761751 GT-AG 0 0.0006591792581434 34615 rna-XM_007445554.1 19748962 8 238207 272821 Lipotes vexillifer 118797 CAG|GTATTTGACT...TAATTTTTAATA/TAATTTTTAATA...TTCAG|AAT 0 1 67.986

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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]);