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 = 19819646

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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
106117765 GT-AG 0 1.000000099473604e-05 108 rna-XM_022027393.1 19819646 2 1442157 1442264 Lobosporangium transversale 64571 CAT|GTAAGGTCCG...TTTTCTTTATAC/CTTTTCTTTATA...CATAG|GGA 2 1 10.852
106117766 GT-AG 0 1.000000099473604e-05 112 rna-XM_022027393.1 19819646 3 1438135 1438246 Lobosporangium transversale 64571 GAG|GTAAAAAAAA...TTTTACTTACCT/CTTTTACTTACC...TATAG|AGA 0 1 46.478
106117767 GT-AG 0 6.405957515783049e-05 138 rna-XM_022027393.1 19819646 4 1436993 1437130 Lobosporangium transversale 64571 CAG|GTAACATAAG...TTTTTCTTTTTT/TTTGAACTCATT...CGTAG|TGA 2 1 55.626
106117768 GT-AG 0 1.000000099473604e-05 92 rna-XM_022027393.1 19819646 5 1436781 1436872 Lobosporangium transversale 64571 CAG|GTAAAATGAT...TATGTCATGAAG/AAGCTATTCACG...CGTAG|CCG 2 1 56.72
106117769 GT-AG 0 1.000000099473604e-05 105 rna-XM_022027393.1 19819646 6 1433849 1433953 Lobosporangium transversale 64571 AAG|GTAATATGGC...AACTCTTTAGCA/CTGCTTTTTATT...ATCAG|ACT 0 1 82.478
106117770 GT-AG 0 1.3015428596919516e-05 101 rna-XM_022027393.1 19819646 7 1431999 1432099 Lobosporangium transversale 64571 CAT|GTAAGTGCGA...TGACTCTTATCA/ATGACTCTTATC...TTCAG|CTA 0 1 98.415
106119093 GT-AG 0 0.0001371549979117 137 rna-XM_022027393.1 19819646 1 1443481 1443617 Lobosporangium transversale 64571 AAG|GTGCCATGTT...TATTTTTTATTT/TTATTTTTTATT...TTCAG|CTC   0 0.583

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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]);