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 = 22631579

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Suggested facets: dinucleotide_pair, score, length

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
122791632 GT-AG 0 2.124113037006836e-05 90 rna-XM_009393788.2 22631579 1 7084340 7084429 Musa acuminata 4641 AAG|GTCGGCATGC...GATTCTTTGACA/TATGGTCTTACA...CTTAG|ATA 1 1 14.148
122791633 GT-AG 0 1.000000099473604e-05 259 rna-XM_009393788.2 22631579 2 7083913 7084171 Musa acuminata 4641 TAG|GTACAAGTTC...AAATAATTGATA/ATGAAACTCATC...TGCAG|GCA 1 1 16.76
122791634 GA-AG 0 1.000000099473604e-05 5063 rna-XM_009393788.2 22631579 3 7077686 7082748 Musa acuminata 4641 GAA|GATGAAGAAG...CTGTTGTTGACG/CTGTTGTTGACG...TGCAG|CAG 1 1 34.857
122791635 GT-AG 0 1.000000099473604e-05 513 rna-XM_009393788.2 22631579 4 7076336 7076848 Musa acuminata 4641 AAG|GTCAGCATGC...GAGTTTGTAAAA/ATGAAACTGATC...TGCAG|GCA 1 1 47.87
122791636 GT-AG 0 0.6144651103373524 5789 rna-XM_009393788.2 22631579 5 7069449 7075237 Musa acuminata 4641 GCT|GTACCTTGGA...GTACAATTAATT/ATAAATCTGATG...ATAAG|GGA 1 1 64.941
122791637 GT-AG 0 1.000000099473604e-05 90 rna-XM_009393788.2 22631579 6 7068441 7068530 Musa acuminata 4641 AAG|GTCAGCATGC...GATTCTTTGACA/TGTGGTCTTACA...CTTAG|ATA 1 1 79.213
122791638 GT-AG 0 1.000000099473604e-05 252 rna-XM_009393788.2 22631579 7 7068021 7068272 Musa acuminata 4641 TAG|GTACAAGTTC...AAATAATTGACA/ATGAAACTCATC...TGCAG|GCA 1 1 81.825

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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]);