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)

7 rows where transcript_id = 29940892

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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
167733830 GT-AG 0 1.000000099473604e-05 25073 rna-XM_041458152.1 29940892 1 11109688 11134760 Pyrgilauda ruficollis 221976 TGG|GTAAGAGAGG...AAACTTTTGATT/TTTTGATTTACT...TCCAG|GTT 1 1 2.602
167733831 GT-AG 0 1.000000099473604e-05 6750 rna-XM_041458152.1 29940892 2 11102872 11109621 Pyrgilauda ruficollis 221976 AAG|GTAAATAAGC...GCTTTCTTTTCT/GCTTGTTTAAAA...TTAAG|ACT 1 1 3.762
167733832 GT-AG 0 1.1584504953945476e-05 223 rna-XM_041458152.1 29940892 3 11102569 11102791 Pyrgilauda ruficollis 221976 AGT|GTAAGTATGA...ATCTTCATATTT/ATGATCTTCATA...TCTAG|GAT 0 1 5.169
167733833 GT-AG 0 1.000000099473604e-05 9091 rna-XM_041458152.1 29940892 4 11093348 11102438 Pyrgilauda ruficollis 221976 AAG|GTAATAAAAG...TGGTTCTTAATA/TTGGTTCTTAAT...TCTAG|ATC 1 1 7.454
167733834 GT-AG 0 0.0002044553579042 8849 rna-XM_041458152.1 29940892 5 11084244 11093092 Pyrgilauda ruficollis 221976 AAG|GTAAATTTCT...TCTTCCTTAAAA/ACTGTTGTCATC...TGCAG|GGG 1 1 11.937
167733835 GT-AG 0 5.104225057782244e-05 9138 rna-XM_041458152.1 29940892 6 11075015 11084152 Pyrgilauda ruficollis 221976 TGG|GTAAGCAATG...TTTGTTTTGATT/TTTGTTTTCATT...TTCAG|TTC 2 1 13.537
167733836 GT-AG 0 1.000000099473604e-05 14836 rna-XM_041458152.1 29940892 7 11055302 11070137 Pyrgilauda ruficollis 221976 TAG|GTAAGTTCTT...AGATTTATGATA/ATGATAATAATT...AACAG|GTG 1 1 99.279

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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]);