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 = 24462882

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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
133657907 GT-AG 0 0.0268561320424956 836 rna-XM_004391478.2 24462882 2 2179941 2180776 Odobenus rosmarus 9707 CAA|GTATGTTTCA...AATATCTCAATA/AAATATCTCAAT...TTTAG|ACA 2 1 30.242
133657908 GT-AG 0 0.0174150962376038 943 rna-XM_004391478.2 24462882 3 2180940 2181882 Odobenus rosmarus 9707 AAG|GTATCATGAA...GCTGCTTTAAAA/ATGATTTTCAAA...TATAG|GAC 0 1 43.86
133657909 GT-AG 0 1.9413019441413403e-05 1032 rna-XM_004391478.2 24462882 4 2181955 2182986 Odobenus rosmarus 9707 CAG|GTGTGTTTGG...TGGACTCTAATA/CTAATAGTCATT...ACCAG|TTT 0 1 49.875
133657910 GT-AG 0 1.000000099473604e-05 2521 rna-XM_004391478.2 24462882 5 2183062 2185582 Odobenus rosmarus 9707 AAG|GTAATTAAAA...TTTCTCTTTATG/CCAATTTTCACA...TAAAG|GAT 0 1 56.14
133657911 GT-AG 0 1.000000099473604e-05 2112 rna-XM_004391478.2 24462882 6 2185733 2187844 Odobenus rosmarus 9707 AAG|GTACTATTAA...AATGTTCTAGTC/AATAATCTAATG...TTTAG|GGA 0 1 68.672
133657912 GT-AG 0 1.8382523418662868e-05 1197 rna-XM_004391478.2 24462882 7 2187951 2189147 Odobenus rosmarus 9707 ATG|GTAAGCTATA...AACATTGTGATG/AACATTGTGATG...TGCAG|TGT 1 1 77.527
133658037 GT-AG 0 0.1389367755360032 4801 rna-XM_004391478.2 24462882 1 2174945 2179745 Odobenus rosmarus 9707 AGG|GTTTTCTTTC...GTGTTTTTAACT/GTGTTTTTAACT...CAGAG|GCT   0 14.787

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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]);