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 = 22190665

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
120267536 GT-AG 0 6.732086230848351e-05 972 rna-XM_022286408.1 22190665 2 1794874 1795845 Momordica charantia 3673 CAG|GTACAATTTT...AACTCATTATCG/ACTGAACTCATT...ATCAG|AGG 1 1 35.177
120267537 GT-AG 0 1.7927364598185085e-05 419 rna-XM_022286408.1 22190665 3 1796035 1796453 Momordica charantia 3673 GAG|GTGCACATAG...AACTTCTTAGTA/TTAGTATTCACA...CTTAG|GAT 1 1 39.589
120267538 GT-AG 0 1.000000099473604e-05 92 rna-XM_022286408.1 22190665 4 1796550 1796641 Momordica charantia 3673 CAG|GTTTGATAAA...ATGGTTTTATTC/TTTATTCTCATT...AGCAG|TGC 1 1 41.83
120267539 GT-AG 0 1.3416751178249625e-05 1016 rna-XM_022286408.1 22190665 5 1796805 1797820 Momordica charantia 3673 TAG|GTAGGTGTAC...ATTTCTTTGATT/TTTTATTTTATT...AATAG|CAG 2 1 45.635
120267540 GT-AG 0 6.004612386831043e-05 87 rna-XM_022286408.1 22190665 6 1797954 1798040 Momordica charantia 3673 CAG|GTATGGGTTG...TTCCCTTTAAAT/ATTATTTTCATT...ATTAG|ATG 0 1 48.739
120267541 GT-AG 0 0.0781204146846052 100 rna-XM_022286408.1 22190665 7 1799808 1799907 Momordica charantia 3673 TGG|GTATGCTTCT...AATCCTCTGATA/CTGATACTGATC...ACCAG|GTC 0 1 89.986

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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]);