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 = 19586911

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
104998838 GT-AG 0 0.0001177846308464 72244 rna-XM_022394401.1 19586911 1 1632307 1704550 Limulus polyphemus 6850 GTG|GTAAGTTTCA...TCTTCTTTATAC/AATGAATTCATC...TACAG|CCA 1 1 22.179
104998839 GT-AG 0 1.000000099473604e-05 2972 rna-XM_022394401.1 19586911 2 1629169 1632140 Limulus polyphemus 6850 AAG|GTAAAAACTT...ACTTCTATAATT/AATTTAATCATA...TTTAG|GCG 2 1 29.301
104998840 GT-AG 0 0.0025324418044899 1118 rna-XM_022394401.1 19586911 3 1627893 1629010 Limulus polyphemus 6850 CTG|GTATTTGTTC...ATGATGTTAATA/ATGATGTTAATA...CATAG|AGA 1 1 36.079
104998841 GT-AG 0 0.0001909545648066 2007 rna-XM_022394401.1 19586911 4 1625780 1627786 Limulus polyphemus 6850 TGT|GTAAGTTACA...TATTTCTTTTTT/TAATAATTTATA...TATAG|ATG 2 1 40.626
104998842 GT-AG 0 0.0044096322223062 2350 rna-XM_022394401.1 19586911 5 1623368 1625717 Limulus polyphemus 6850 GCA|GTACGTTAAG...CCGTTTTTAATA/TATTCTTTTATT...TGCAG|TGT 1 1 43.286
104998917 GT-AG 0 0.002868354581599 866 rna-XM_022394401.1 19586911 6 1622431 1623296 Limulus polyphemus 6850 ATT|GTACGTATTC...ATTTTCTTTAAT/ATTTTCTTTAAT...TTCAG|ATT   0 46.332
104998918 GT-AG 0 1.000000099473604e-05 3496 rna-XM_022394401.1 19586911 7 1618832 1622327 Limulus polyphemus 6850 CAA|GTAAGTCATT...ACTCTATTAACT/ACTCTATTAACT...TTTAG|GTC   0 50.751

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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]);