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 = 2569321

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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
13843048 GT-AG 0 1.000000099473604e-05 7239 rna-XM_026057403.1 2569321 1 11104487 11111725 Apteryx rowi 308060 CAG|GTAAGCAATG...GAGTACATAACT/ACATAACTGAGT...TCCAG|GTG 1 1 5.402
13843049 GT-AG 0 1.000000099473604e-05 498 rna-XM_026057403.1 2569321 2 11103638 11104135 Apteryx rowi 308060 GCG|GTGAGTGGAG...AAATGCTTCTCC/CGATGGGTAAAT...CGCAG|CCA 1 1 28.524
13843050 GT-AG 0 1.000000099473604e-05 146 rna-XM_026057403.1 2569321 3 11103180 11103325 Apteryx rowi 308060 GAG|GTGAGGGCTC...AAGCGCTTCTTT/GGGTTGCAGAGC...TGCAG|TGC 1 1 49.078
13843051 GT-AG 0 1.000000099473604e-05 897 rna-XM_026057403.1 2569321 4 11101929 11102825 Apteryx rowi 308060 AGG|GTGAGTGTGA...TCTGTCTTGTCT/TCTTGTCTCATT...TTCAG|ACA 1 1 72.398
13843052 GT-AG 0 1.000000099473604e-05 1031 rna-XM_026057403.1 2569321 5 11100796 11101826 Apteryx rowi 308060 AAA|GTAAGGAAAT...GTTTCCTAAACT/TGTTTCCTAAAC...GGCAG|GTA 1 1 79.117
13843053 GT-AG 0 1.000000099473604e-05 728 rna-XM_026057403.1 2569321 6 11100046 11100773 Apteryx rowi 308060 TAG|GTAAGTGCTG...ACTTCATTGATT/ACTTCATTGATT...TCCAG|GTT 2 1 80.567
13843054 GT-AG 0 1.000000099473604e-05 822 rna-XM_026057403.1 2569321 7 11099184 11100005 Apteryx rowi 308060 CAG|GTGTGTAGCT...TTTCCCTTGCCC/ACTCTTGTTATC...CACAG|GAG 0 1 83.202

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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]);