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 = 21930916

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Suggested facets: score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
118866374 GT-AG 0 0.0028247157146816 5713 rna-XM_034995998.1 21930916 3 330007 335719 Mirounga leonina 9715 TAG|GTATATCTAA...GTCATTTTAATT/GTCATTTTAATT...TGAAG|GAA 1 1 16.814
118866375 GT-AG 0 0.0002357036506847 7467 rna-XM_034995998.1 21930916 4 336290 343756 Mirounga leonina 9715 CCT|GTAAGTCTTG...TGTCTCTTACTG/ATGTCTCTTACT...TTTAG|TGG 1 1 37.034
118866376 GT-AG 0 1.000000099473604e-05 387 rna-XM_034995998.1 21930916 5 343907 344293 Mirounga leonina 9715 TAG|GTAAGAGGAG...AAATTCTCAGAG/TAAATTCTCAGA...GGTAG|GTG 1 1 42.355
118866377 GT-AG 0 1.000000099473604e-05 779 rna-XM_034995998.1 21930916 6 344438 345216 Mirounga leonina 9715 TAA|GTAAGTAGGT...TCTCTCTGATCT/GTTCTACTAATT...ATTAG|ATG 1 1 47.464
118866378 GT-AG 0 1.000000099473604e-05 441 rna-XM_034995998.1 21930916 7 345373 345813 Mirounga leonina 9715 ATG|GTAAGTCACA...TGTTTTTTAATA/TGTTTTTTAATA...GTTAG|GTA 1 1 52.998
118866379 GT-AG 0 1.000000099473604e-05 768 rna-XM_034995998.1 21930916 8 345955 346722 Mirounga leonina 9715 CAG|GTGAGGGTGC...TCTTCCTTTCTT/CTTGGTTTGATC...TGTAG|CAA 1 1 57.999
118866391 GT-AG 0 1.000000099473604e-05 4303 rna-XM_034995998.1 21930916 1 324937 329239 Mirounga leonina 9715 CTG|GTGGGTATTG...TATTTTTTACCT/TTATTTTTTACC...TGTAG|CTG   0 12.238
118866392 GT-AG 0 1.000000099473604e-05 610 rna-XM_034995998.1 21930916 2 329308 329917 Mirounga leonina 9715 AAG|GTCAGTTAAG...TATACTTTATTT/ATATAATTAATA...CTTAG|GAG   0 14.651

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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]);