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 = 1893676

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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
10471716 GT-AG 0 1.000000099473604e-05 63 AMAM014631-RA 1893676 1 6279 6341 Anopheles maculatus 74869 TAC|GTAAGTGTAG...TCATTTTCAACC/ATAGTTTTCATT...TCCAG|CTA 2 1 25.971
10471717 GT-AG 0 0.0001579474676095 88 AMAM014631-RA 1893676 2 5766 5853 Anopheles maculatus 74869 CGG|GTATAGTGTC...GTATCACTAACT/GTATCACTAACT...TTTAG|GTA 1 1 47.403
10471718 GT-AG 0 2.3992810821473263e-05 1214 AMAM014631-RA 1893676 3 4424 5637 Anopheles maculatus 74869 GAC|GTACGTAAAT...TTCTTTGTAAAA/TTCTTTGTAAAA...CACAG|GAC 0 1 53.858
10471719 GT-AG 0 1.000000099473604e-05 77 AMAM014631-RA 1893676 4 4115 4191 Anopheles maculatus 74869 AGC|GTAAGTGTTT...CGTTTATTATAT/ACGTTTATTATA...TACAG|AAT 1 1 65.557
10471720 GT-AG 0 0.0017681646804795 2132 AMAM014631-RA 1893676 5 1847 3978 Anopheles maculatus 74869 TCT|GTACGTCCCG...GTCGCCCTGACG/TGTCTAGTCATC...CACAG|TTA 2 1 72.416
10471721 GT-AG 0 1.000000099473604e-05 89 AMAM014631-RA 1893676 6 1711 1799 Anopheles maculatus 74869 TCG|GTAAGGGATC...TTCCTTTTATCA/AATTCATTCACT...TTTAG|CTG 1 1 74.786
10471722 GT-AG 0 1.000000099473604e-05 72 AMAM014631-RA 1893676 7 1407 1478 Anopheles maculatus 74869 GAG|GTAGAGTATC...GAGTAATTAACT/GAGTAATTAACT...TTCAG|ATT 2 1 86.485

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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]);