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)

6 rows where transcript_id = 1341760

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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
7217562 GT-AG 0 0.0043331251967059 119 rna-XM_006858853.3 1341760 1 402375 402493 Amborella trichopoda 13333 CGG|GTATCAAAAC...TTTTTCTTCTTT/ATTGTTTTGAGA...TGCAG|TAT 0 1 3.308
7217563 GT-AG 0 0.0001667117889658 92 rna-XM_006858853.3 1341760 2 402532 402623 Amborella trichopoda 13333 TGT|GTAAGATTTT...TTAGTTTTGATG/TTAGTTTTGATG...TTCAG|GTA 2 1 4.919
7217564 GT-AG 0 0.0002884783232224 84 rna-XM_006858853.3 1341760 3 402852 402935 Amborella trichopoda 13333 ACA|GTAGGTTATT...TCTCTCTGGAAC/TTAGAGTTGAGG...TTCAG|GTA 2 1 14.589
7217565 GT-AG 0 4.4167669212052566e-05 668 rna-XM_006858853.3 1341760 4 403157 403824 Amborella trichopoda 13333 TTG|GTAAACCCAC...TATTTCTTGTTT/AAAAGTTTTAGA...CGCAG|GCA 1 1 23.961
7217566 GT-AG 0 1.000000099473604e-05 109 rna-XM_006858853.3 1341760 5 403983 404091 Amborella trichopoda 13333 TCT|GTAAGAGCCC...TTCATCTTAACC/TTTTCATTCATC...TTTAG|GGC 0 1 30.662
7217567 GT-AG 0 1.000000099473604e-05 121 rna-XM_006858853.3 1341760 6 404597 404717 Amborella trichopoda 13333 AAG|GTCAGATCTT...TTTCCTTTATCT/TTAGATTTCAAT...TACAG|GGA 1 1 52.078

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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]);