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 = 17265364

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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
92256031 GT-AG 0 3.0852522740754534e-05 649 rna-XM_021441323.1 17265364 2 10868252 10868900 Herrania umbratica 108875 TAG|GTACTTCACT...CTTGATTTAACT/CTTGATTTAACT...TGCAG|AAC 1 1 42.523
92256032 GT-AG 0 1.000000099473604e-05 141 rna-XM_021441323.1 17265364 3 10867595 10867735 Herrania umbratica 108875 CAG|GTTAGGATTA...GCATCTTTACTT/TATTCTCTGACC...ATCAG|TAG 1 1 59.519
92256033 GT-AG 0 1.000000099473604e-05 158 rna-XM_021441323.1 17265364 4 10867308 10867465 Herrania umbratica 108875 GAG|GTAAGTATGG...TGTTTCTTGTAA/TGTTGTTGCATC...TTCAG|TAA 1 1 63.768
92256034 GT-AG 0 0.0105255028763476 81 rna-XM_021441323.1 17265364 6 10867028 10867108 Herrania umbratica 108875 AAG|GTATTGTTTT...TTATTCTTAATG/ATTATTTTTACA...CCCAG|GGC 0 1 70.257
92256035 GT-AG 0 1.000000099473604e-05 158 rna-XM_021441323.1 17265364 7 10866659 10866816 Herrania umbratica 108875 TTG|GTTAGCCGCT...TGGTCTTTGATG/TGGTCTTTGATG...TAAAG|ATG 1 1 77.207
92256036 GT-AG 0 1.000000099473604e-05 134 rna-XM_021441323.1 17265364 8 10866287 10866420 Herrania umbratica 108875 ATA|GTGAGTTGCA...CACTTCTAATCA/GCACTTCTAATC...TGCAG|TGG 2 1 85.046
92256037 GT-AG 0 2.373598864638197e-05 86 rna-XM_021441323.1 17265364 9 10866050 10866135 Herrania umbratica 108875 TAT|GTAAGTAGAG...ATTTTTTTAATT/ATTTTTTTAATT...TCCAG|GCA 0 1 90.02

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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]);