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 = 26649271

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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
147771849 GT-AG 0 7.50429157073313e-05 160 PHUM609440-RA 26649271 1 2763600 2763759 Pediculus humanus 121224 TGA|GTCATTTAGG...TTTTTTTTATTA/TTTTTTTTTATT...AAAAG|TTA 1 1 2.992
147771850 GT-AG 0 8.717110189632923e-05 82 PHUM609440-RA 26649271 2 2763270 2763351 Pediculus humanus 121224 TCG|GTATTAAAAC...TATTTATTAATA/TATTTATTAATA...TACAG|AAT 0 1 20.251
147771851 GT-AG 0 0.0002444402662412 78 PHUM609440-RA 26649271 3 2763057 2763134 Pediculus humanus 121224 CAG|GTACGCGTAC...TTTTTTTTGAAT/TTTTTTTTGAAT...TTTAG|AAC 0 1 29.645
147771852 GT-AG 0 1.000000099473604e-05 65 PHUM609440-RA 26649271 4 2762799 2762863 Pediculus humanus 121224 ACG|GTTGGTAACA...TTTCTCTTGTAT/CATGAATTAAAT...TTCAG|AGC 1 1 43.076
147771853 GT-AG 0 1.000000099473604e-05 98 PHUM609440-RA 26649271 5 2762508 2762605 Pediculus humanus 121224 TCA|GTTAGAAAGT...AAATGTTTAATG/AAATGTTTAATG...AATAG|GGA 2 1 56.507
147771854 GT-AG 0 1.000000099473604e-05 71 PHUM609440-RA 26649271 6 2762244 2762314 Pediculus humanus 121224 TTA|GTAAGTAAAT...TGATTTTTAAGA/TATAATTTCACG...CGTAG|GAT 0 1 69.937
147771855 GT-AG 0 1.000000099473604e-05 75 PHUM609440-RA 26649271 7 2762020 2762094 Pediculus humanus 121224 CAT|GTTGGTAACA...TATCCCTTTTTC/ATGAAATTTATC...TTCAG|GCA 2 1 80.306
147771856 GT-AG 0 1.000000099473604e-05 79 PHUM609440-RA 26649271 8 2761782 2761860 Pediculus humanus 121224 AAG|GTGAATATTT...TTTTTGTTAATT/TTTTTGTTAATT...TACAG|AGC 2 1 91.371

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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]);