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 = 3611936

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Suggested facets: phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
18022284 GT-AG 0 0.1129576256818024 735 rna-XM_020396072.1 3611936 2 113000801 113001535 Asparagus officinalis 4686 GAT|GTATGTTTAT...TTTTCTTTCATT/TTTTCTTTCATT...TACAG|CTC 0 1 8.851
18022285 GT-AG 0 0.0015228253437248 109 rna-XM_020396072.1 3611936 3 113000438 113000546 Asparagus officinalis 4686 TCA|GTACGTCTCT...GTGTTTATAATT/CCTATGTTCATC...GACAG|ACG 2 1 16.057
18022286 GT-AG 0 1.000000099473604e-05 93 rna-XM_020396072.1 3611936 4 113000074 113000166 Asparagus officinalis 4686 AAG|GTTGGTTCTT...CACGCCTTAACT/CTTTGTTTGACT...ATCAG|GAT 0 1 23.745
18022287 GT-AG 0 5.521616257695402e-05 2814 rna-XM_020396072.1 3611936 5 112997176 112999989 Asparagus officinalis 4686 CGA|GTAAGTATAT...TTACCTTTACCT/ATGACTTTTACC...AACAG|GTG 0 1 26.128
18022288 GT-AG 0 0.0011702864292935 226 rna-XM_020396072.1 3611936 6 112994806 112995031 Asparagus officinalis 4686 AGT|GTAGGCAATA...AATGTTTTATCC/CAATGTTTTATC...TTCAG|TGC 2 1 86.95
18022289 GT-AG 0 1.1789825140606345e-05 1032 rna-XM_020396072.1 3611936 7 112993536 112994567 Asparagus officinalis 4686 AAG|GTAATTTCTT...GTCTTCTGACCT/TGTCTTCTGACC...AGCAG|GAA 0 1 93.702
18035469 GT-AG 0 5.348001244244571e-05 5387 rna-XM_020396072.1 3611936 1 113001746 113007132 Asparagus officinalis 4686 GAG|GTAGGTCTTT...CTTTCATTAACT/TTTACTTTCATT...AGCAG|CTC   0 3.489

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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]);