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 = 4024504

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
20804727 GT-AG 0 1.000000099473604e-05 2582 rna-XM_010312345.1 4024504 1 4545 7126 Balearica regulorum 925459 AAT|GTGAGTTGTC...TTGGCTTCAGTA/TTTGGCTTCAGT...TGTAG|GTA 0 1 18.641
20804728 GT-AG 0 8.349587170988303e-05 1975 rna-XM_010312345.1 4024504 2 7205 9179 Balearica regulorum 925459 TTT|GTAAGTGTTC...GTGTTCTGAATT/TGTGTTCTGAAT...TATAG|CTA 0 1 25.104
20804729 GT-AG 0 1.000000099473604e-05 1683 rna-XM_010312345.1 4024504 3 9258 10940 Balearica regulorum 925459 GCT|GTGAGTAGTA...TTAGTCTTAACT/ACTGTTTTTACC...TTCAG|TTT 0 1 31.566
20804730 GT-AG 0 0.0004024575811165 102 rna-XM_010312345.1 4024504 4 10995 11096 Balearica regulorum 925459 CAG|GTACATATTC...ATTTCTGTAACA/TTTAGGGTAATT...TCAAG|CTG 0 1 36.04
20804731 GT-AG 0 0.0032620070920322 2632 rna-XM_010312345.1 4024504 5 11215 13846 Balearica regulorum 925459 ACA|GTAAGCTTTT...GTTTTTTTGAGA/GTTTTTTTGAGA...TCTAG|GAT 1 1 45.816
20804732 GT-AG 0 1.000000099473604e-05 2974 rna-XM_010312345.1 4024504 6 13946 16919 Balearica regulorum 925459 CAG|GTAGTTGCGT...CTTCTCTCAACT/ACTGATCTAATA...TTCAG|GAT 1 1 54.018
20804733 GT-AG 0 0.0001165755802954 826 rna-XM_010312345.1 4024504 7 16990 17815 Balearica regulorum 925459 CAG|GTAAATTCCT...ATTGTCTTGACT/ATTGTCTTGACT...TACAG|AAA   0 59.818

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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]);