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 = 5773971

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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
29499003 GT-AG 0 1.000000099473604e-05 1067 rna-XM_020360672.2 5773971 2 5042769 5043835 Cajanus cajan 3821 AAG|GTCAGGTTAC...GACTTCTAAATA/ATGTAATTGACT...AATAG|GTG 0 1 5.567
29499004 GT-AG 0 1.000000099473604e-05 255 rna-XM_020360672.2 5773971 3 5044409 5044663 Cajanus cajan 3821 TCT|GTAAGACAAT...GATGTTTTAATT/GATGTTTTAATT...GACAG|GTT 0 1 22.268
29499005 GT-AG 0 1.4172148076299588e-05 133 rna-XM_020360672.2 5773971 4 5046035 5046167 Cajanus cajan 3821 GAG|GTGTGTTCCA...AATATTTCAACA/AAATATTTCAAC...TGCAG|ATT 0 1 62.227
29499006 GT-AG 0 2.8763000161341212e-05 145 rna-XM_020360672.2 5773971 5 5046493 5046637 Cajanus cajan 3821 AAG|GTAATTTATA...TATCTTTTATCC/TTTATCCTAATT...TACAG|AAT 1 1 71.699
29499007 GT-AG 0 0.0027275880109002 82 rna-XM_020360672.2 5773971 6 5046900 5046981 Cajanus cajan 3821 AAG|GTATGATATG...TTTTCCTTATCT/TATATTCTAATC...TACAG|GTA 2 1 79.335
29499008 GT-AG 0 0.0005318690721707 357 rna-XM_020360672.2 5773971 7 5047199 5047555 Cajanus cajan 3821 AAG|GTATGATGCT...GTATTCTTAATC/TGTATTCTTAAT...TATAG|GTA 0 1 85.66
29499009 GT-AG 0 0.0002001872977372 98 rna-XM_020360672.2 5773971 8 5047921 5048018 Cajanus cajan 3821 AGG|GTATAAATCT...GAAATTTTATTT/TTTTATTTCAAA...TGCAG|GAA 2 1 96.298

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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]);