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)

8 rows where transcript_id = 34283781

✎ 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
192054398 GT-AG 0 0.0019751217296069 2250 rna-XM_014882980.1 34283781 1 9350464 9352713 Sturnus vulgaris 9172 AAG|GTATACCATT...TTGCCTATAGAC/ACTCAGGTAATG...TTCAG|ATC 1 1 9.551
192054399 GT-AG 0 0.0390953692521104 795 rna-XM_014882980.1 34283781 2 9352844 9353638 Sturnus vulgaris 9172 CAG|GTATTTTTAA...TCTCCTTTGACA/AATTTTTTAATA...CATAG|GTA 2 1 21.968
192054400 GT-AG 0 1.000000099473604e-05 1370 rna-XM_014882980.1 34283781 3 9353757 9355126 Sturnus vulgaris 9172 CAG|GTAAATCCCC...ACTTTTTTAATG/ACTTTTTTAATG...TCCAG|AAT 0 1 33.238
192054401 GT-AG 0 1.6683390354789077e-05 580 rna-XM_014882980.1 34283781 4 9355206 9355785 Sturnus vulgaris 9172 AAA|GTAAGTACTG...ACAGCCTTAAAT/CTTAAATTAATG...AATAG|GTG 1 1 40.783
192054402 GT-AG 0 1.000000099473604e-05 2645 rna-XM_014882980.1 34283781 5 9355878 9358522 Sturnus vulgaris 9172 CTG|GTAAGTATTA...TTCCTTTTATAT/CTTCCTTTTATA...TGCAG|GAC 0 1 49.57
192054403 GT-AG 0 9.476763738452046e-05 1430 rna-XM_014882980.1 34283781 6 9358637 9360066 Sturnus vulgaris 9172 CAG|GTACAGTCTC...AAGTTTTTGACA/TATTGTTTTATT...CCCAG|AAC 0 1 60.458
192054404 GT-AG 0 1.1094914963160852e-05 761 rna-XM_014882980.1 34283781 7 9360142 9360902 Sturnus vulgaris 9172 AAA|GTAAGTATGC...GTGTTTTTATAT/TGTGTTTTTATA...TTAAG|GTC 0 1 67.622
192054405 GT-AG 0 1.000000099473604e-05 1321 rna-XM_014882980.1 34283781 8 9361017 9362337 Sturnus vulgaris 9172 GTG|GTAAGTATGC...CAATCTGTGATT/CAATCTGTGATT...CTTAG|CTG 0 1 78.51

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]);