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 = 10944811

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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
60661598 GT-AG 0 1.000000099473604e-05 90 rna-XM_020819919.2 10944811 1 159154 159243 Dendrobium catenatum 906689 CGG|GTGAGATGTC...ATTTTCTTCTTT/CGTCCTCTAATA...TACAG|GAA 2 1 3.169
60661599 GT-AG 0 1.000000099473604e-05 7934 rna-XM_020819919.2 10944811 2 151179 159112 Dendrobium catenatum 906689 TAG|GTTAGTTCTA...ATTTATTCAACG/GATTTATTCAAC...CACAG|GAG 1 1 5.49
60661600 GT-AG 0 7.157786796297644e-05 318 rna-XM_020819919.2 10944811 3 149707 150024 Dendrobium catenatum 906689 GAG|GTAAATTGAT...TGATTCTTGATA/TGATTCTTGATA...AACAG|AAC 0 1 70.798
60661601 GT-AG 0 2.967411341237266e-05 3561 rna-XM_020819919.2 10944811 4 146026 149586 Dendrobium catenatum 906689 CAG|GTAATGTCTT...AATTCCTTAATT/AATTCCTTAATT...TTCAG|GTA 0 1 77.589
60661602 GT-AG 0 0.0121414327062148 104 rna-XM_020819919.2 10944811 5 145805 145908 Dendrobium catenatum 906689 AGG|GTATGCCATT...TTTGTTTTAGTT/CTTTGTTTTAGT...TACAG|GTT 0 1 84.211
60661603 GT-AG 0 1.000000099473604e-05 1832 rna-XM_020819919.2 10944811 6 143883 145714 Dendrobium catenatum 906689 AGG|GTAAGATCTT...TCATTTTTGATT/TCATTTTTGATT...GCCAG|GCT 0 1 89.304
60661604 GT-AG 0 0.0002955833785632 521 rna-XM_020819919.2 10944811 7 143254 143774 Dendrobium catenatum 906689 CAG|GTAATTTTTT...TTTTTCTTATAC/ATTTTTCTTATA...ATCAG|GTG 0 1 95.416

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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]);