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 = 21930999

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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
118866889 GT-AG 0 1.000000099473604e-05 13104 rna-XM_035017484.1 21930999 1 1227461 1240564 Mirounga leonina 9715 GGG|GTAAGTGCCG...GTGTCTTTAAAC/TGTGTCTTTAAA...TTGAG|AAT 1 1 11.977
118866890 GT-AG 0 6.675211106590086e-05 260 rna-XM_035017484.1 21930999 2 1240749 1241008 Mirounga leonina 9715 ACA|GTAAGTGACC...ACTTTCTTAACA/ACTTTCTTAACA...CACAG|CAC 2 1 32.768
118866891 GT-AG 0 1.000000099473604e-05 297 rna-XM_035017484.1 21930999 3 1241163 1241459 Mirounga leonina 9715 ACC|GTGAGTGTCT...CTTCTCTTCACC/TCTCTCCTCACT...CTTAG|ATT 0 1 50.169
118866892 GT-AG 0 1.000000099473604e-05 114 rna-XM_035017484.1 21930999 4 1241544 1241657 Mirounga leonina 9715 GAT|GTAAGAGAGG...AAGACTCTATCC/TCCAAAATTATT...TGCAG|TTT 0 1 59.661
118866893 GT-AG 0 0.0003246232169543 116 rna-XM_035017484.1 21930999 5 1241763 1241878 Mirounga leonina 9715 AAG|GTATGTGTTG...GAGTTCTTGGTG/TTGGTGCTGACC...TGCAG|ATA 0 1 71.525
118866894 GT-AG 0 1.000000099473604e-05 120 rna-XM_035017484.1 21930999 6 1241960 1242079 Mirounga leonina 9715 AAG|GTAATGCAGA...ATTCCCCTATCC/GCTTTCTCCATC...TGCAG|CTG 0 1 80.678
118866895 GT-AG 0 2.203590238253914 147 rna-XM_035017484.1 21930999 7 1242150 1242296 Mirounga leonina 9715 CAG|GTACCCTTGA...TGGCCCTGGACC/AGCCTTCTGATT...TGAAG|ACT 1 1 88.588

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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]);