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 = 19924001

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
106655786 GT-AG 0 1.000000099473604e-05 37785 rna-XM_032854276.1 19924001 1 53838989 53876773 Lontra canadensis 76717 TAG|GTAAGAGAGA...CTCTCTTTTACA/TAAAATTTAACT...CACAG|GTT 1 1 2.696
106655787 GT-AG 0 1.000000099473604e-05 11332 rna-XM_032854276.1 19924001 2 53876840 53888171 Lontra canadensis 76717 AAG|GTAATGCTTT...TTTGTTTTAATA/TTTGTTTTAATA...TAAAG|ACT 1 1 3.852
106655788 GT-AG 0 0.0002659025121156 877 rna-XM_032854276.1 19924001 3 53888252 53889128 Lontra canadensis 76717 AGT|GTAAGTTTTA...GTTGCTTTGTTA/ACTTGTGTAATT...TTTAG|GAT 0 1 5.252
106655789 GT-AG 0 2.5101905571343853e-05 49118 rna-XM_032854276.1 19924001 4 53889259 53938376 Lontra canadensis 76717 AAG|GTAATATTGG...TCTTTTTTAACA/TCTTTTTTAACA...CCTAG|ATC 1 1 7.528
106655790 GT-AG 0 1.000000099473604e-05 21760 rna-XM_032854276.1 19924001 5 53938629 53960388 Lontra canadensis 76717 AAG|GTAAGATTTT...TTTCTCTTGCAA/CTATCTGTCACA...TATAG|GGG 1 1 11.94
106655791 GT-AG 0 1.3340121588389357e-05 8020 rna-XM_032854276.1 19924001 6 53960483 53968502 Lontra canadensis 76717 TGG|GTAAGCAATA...TTTTGTTTGATT/TTGATTTTTATT...TTTAG|TTC 2 1 13.585
106655792 GT-AG 0 0.0001256261618953 7295 rna-XM_032854276.1 19924001 7 53973320 53980614 Lontra canadensis 76717 TAG|GTAAGTTTTT...AAATCTTTATTC/TAAATCTTTATT...CGCAG|CCT 1 1 97.917

Advanced export

JSON shape: default, array, newline-delimited, object

CSV options: 

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]);