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 = 22631638

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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
122792446 GT-AG 0 1.000000099473604e-05 88 rna-XM_009417271.2 22631638 2 18610914 18611001 Musa acuminata 4641 GAG|GTAAAAATGG...GATTCCTTGTAT/AAATATCTAAAA...TCCAG|GAT 0 1 74.518
122792447 GT-AG 0 1.000000099473604e-05 821 rna-XM_009417271.2 22631638 3 18611089 18611909 Musa acuminata 4641 CAG|GTAAAAATGT...AAATTCTTATTT/AAAATTCTTATT...TTCAG|ATT 0 1 76.849
122792448 GT-AG 0 1.000000099473604e-05 444 rna-XM_009417271.2 22631638 4 18612063 18612506 Musa acuminata 4641 CTG|GTTTGTTGGT...TACTGCTCGATT/AGTTGATTGATT...TACAG|AGC 0 1 80.949
122792449 GT-AG 0 1.000000099473604e-05 90 rna-XM_009417271.2 22631638 5 18612671 18612760 Musa acuminata 4641 CAG|GTGAGCCGAG...ATGATGTTACTT/ATTATGCTGATG...TTTAG|CGC 2 1 85.343
122792450 GT-AG 0 1.000000099473604e-05 233 rna-XM_009417271.2 22631638 6 18612909 18613141 Musa acuminata 4641 AAG|GTAGGTCCCG...ATATTTTTATGT/GATATTTTTATG...CGTAG|GTT 0 1 89.309
122792451 GT-AG 0 1.000000099473604e-05 319 rna-XM_009417271.2 22631638 7 18613265 18613583 Musa acuminata 4641 AAG|GTGATCTCCA...TGCTTCTTGAAC/GTCTTGGTCATT...TCTAG|GTT 0 1 92.605
122792452 GT-AG 0 1.000000099473604e-05 900 rna-XM_009417271.2 22631638 8 18613672 18614571 Musa acuminata 4641 TAG|GTAAATGTTA...AATGATTTGATT/AATGATTTGATT...TACAG|GTG 1 1 94.962
122802437 GT-AG 0 0.0070438594914968 276 rna-XM_009417271.2 22631638 1 18607655 18607930 Musa acuminata 4641 CAG|GTACTCTCTC...TTTGCCTTGGTC/CCCGTGGTAATG...TGCAG|GTA   0 5.145

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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]);