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)

6 rows where transcript_id = 2158728

✎ 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
11719734 GT-AG 0 1.9607999849376745e-05 44 rna-XM_008862580.1 2158728 1 74421 74464 Aphanomyces invadans 157072 CAG|GTATGCAAGA...TCGGTCTCGGTG/GTGGGACTCACC...GAAAG|GGC 1 1 0.891
11719735 GT-AG 0 0.0006167444865651 45 rna-XM_008862580.1 2158728 2 74506 74550 Aphanomyces invadans 157072 CAG|GTACCGTGCG...CACTCCATATAC/ATATACCTCACG...TATAG|TTC 0 1 1.879
11719736 GT-AG 0 1.000000099473604e-05 43 rna-XM_008862580.1 2158728 3 74993 75035 Aphanomyces invadans 157072 AAG|GTACGCACTT...AGAAGCTCAGTG/AAGAAGCTCAGT...ACTAG|GTG 1 1 12.524
11719737 GT-AG 0 1.000000099473604e-05 48 rna-XM_008862580.1 2158728 4 75877 75924 Aphanomyces invadans 157072 CAG|GTGCTTCTTG...GATTGTCTAACG/GATTGTCTAACG...GGTAG|CTT 2 1 32.779
11719738 GT-AG 0 0.001252696435661 51 rna-XM_008862580.1 2158728 5 76104 76154 Aphanomyces invadans 157072 ATG|GTACCAACGC...TACGCCCTAGCA/CCTAGCATCATG...GTTAG|ATA 1 1 37.091
11719739 GT-AG 0 2.669675664931601e-05 49 rna-XM_008862580.1 2158728 6 78615 78663 Aphanomyces invadans 157072 CAG|GTAACGCGCT...TTTTGCTTGACG/TTTTGCTTGACG...TGTAG|AGG 1 1 96.339

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]);