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 = 94398

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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
497798 GT-AG 0 6.58769579098838e-05 2122 rna-XM_009072883.1 94398 1 2876 4997 Acanthisitta chloris 57068 TTG|GTAAATACTC...GTTTTTTTAATA/TTTTTTTTTACC...CTAAG|AAT 1 1 10.608
497799 GT-AG 0 1.000000099473604e-05 1314 rna-XM_009072883.1 94398 2 5129 6442 Acanthisitta chloris 57068 CAG|GTCTGTGTGA...TATTTTGTAATT/TATTTTGTAATT...TGCAG|ATT 0 1 25.083
497800 GT-AG 0 1.000000099473604e-05 1264 rna-XM_009072883.1 94398 3 6530 7793 Acanthisitta chloris 57068 AAG|GTAGTAACTT...TCAAGTTTACTG/ATCAAGTTTACT...CTTAG|CCT 0 1 34.696
497801 GT-AG 0 0.0002343642405676 1843 rna-XM_009072883.1 94398 4 7944 9786 Acanthisitta chloris 57068 CAG|GTATGTCAAA...CTGGCTTTAATT/CTGGCTTTAATT...CACAG|GAA 0 1 51.271
497802 GT-AG 0 0.0001155101940971 923 rna-XM_009072883.1 94398 5 9894 10816 Acanthisitta chloris 57068 AAG|GTTTGTATTA...TTTATTTTGATT/TTTATTTTGATT...TTAAG|TTT 2 1 63.094
497803 GT-AG 0 1.000000099473604e-05 89 rna-XM_009072883.1 94398 6 10883 10971 Acanthisitta chloris 57068 AAG|GTAAAAATTT...TTTGCTTCAGTT/AGATTTTTCATG...TGCAG|GCC 2 1 70.387
497804 GT-AG 0 1.000000099473604e-05 967 rna-XM_009072883.1 94398 7 11016 11982 Acanthisitta chloris 57068 GGA|GTGAGTATTA...GCAGCCTTAACA/TGTATATTAACT...TCTAG|GTC 1 1 75.249
497805 GT-AG 0 1.000000099473604e-05 5578 rna-XM_009072883.1 94398 8 12048 17625 Acanthisitta chloris 57068 CAG|GTTTGTACCC...CTGTTCATATAT/TCTCTGTTCATA...CCTAG|CGA 0 1 82.431

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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]);