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 = 8115977

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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
43325825 GT-AG 0 1.000000099473604e-05 173 rna-XM_010116147.1 8115977 1 50814 50986 Chlamydotis macqueenii 187382 ACG|GTAAGAAAAC...TTTATTTTATTT/GTTTATTTTATT...CATAG|AAT 2 1 4.598
43325826 GT-AG 0 1.000000099473604e-05 2064 rna-XM_010116147.1 8115977 2 48572 50635 Chlamydotis macqueenii 187382 AAT|GTAAGTACAG...TTCCTCTGGAAT/GAATATCTCACC...CCCAG|GCG 0 1 19.212
43325827 GT-AG 0 1.000000099473604e-05 500 rna-XM_010116147.1 8115977 3 47954 48453 Chlamydotis macqueenii 187382 GCA|GTAAGAAACG...ATTGCTGGGACC/ACAGATATAATT...TGTAG|GGG 1 1 28.9
43325828 GT-AG 0 1.000000099473604e-05 431 rna-XM_010116147.1 8115977 4 47404 47834 Chlamydotis macqueenii 187382 CAG|GTGAGCATCC...GTGTCTTTACTT/TTTACTTTCACT...AACAG|ATA 0 1 38.67
43325829 GT-AG 0 1.000000099473604e-05 632 rna-XM_010116147.1 8115977 5 46572 47203 Chlamydotis macqueenii 187382 AAG|GTCAGCCTTT...TCAGTGTTAACC/TCAGTGTTAACC...TTCAG|AGG 2 1 55.09
43325830 GT-AG 0 0.0020805376280548 1105 rna-XM_010116147.1 8115977 6 45344 46448 Chlamydotis macqueenii 187382 CAA|GTATGTATGT...GTTTCTTTGTTT/TTGTTTTTCACT...CACAG|CAT 2 1 65.189
43325831 GT-AG 0 1.000000099473604e-05 2582 rna-XM_010116147.1 8115977 7 42617 45198 Chlamydotis macqueenii 187382 GAG|GTAAAAACTG...CCCGCCTCAATC/GCAATACTTAAA...TACAG|TTT 0 1 77.094
43325832 GT-AG 0 1.000000099473604e-05 99 rna-XM_010116147.1 8115977 8 42419 42517 Chlamydotis macqueenii 187382 AAG|GTGCGTAGCC...TGGGCTTTCCCT/CAGGGCTGGAGC...TCCAG|GAG 0 1 85.222

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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]);