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)

5 rows where transcript_id = 26383257

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
146244016 GT-AG 0 3.4330479232402044e-05 195 rna-gnl|WGS:JXTB|PanWU01x14_001200.1 26383257 1 1417413 1417607 Parasponia andersonii 3476 GAG|GTACTTAAAA...GTGGTTTTGATC/GTGGTTTTGATC...CACAG|AGC 0 1 70.068
146244017 GT-AG 0 1.000000099473604e-05 103 rna-gnl|WGS:JXTB|PanWU01x14_001200.1 26383257 2 1417728 1417830 Parasponia andersonii 3476 GAG|GTCAGTAGCT...TGTGTTTGAACT/TATAATTTGATT...TGAAG|CTA 0 1 76.871
146244018 GT-AG 0 0.0038010929763647 267 rna-gnl|WGS:JXTB|PanWU01x14_001200.1 26383257 3 1417948 1418214 Parasponia andersonii 3476 AAG|GTATACATAT...CTTCGCTTATTT/CTTATTTTAAGC...TGTAG|GTC 0 1 83.503
146244019 GT-AG 0 0.0042454928265119 116 rna-gnl|WGS:JXTB|PanWU01x14_001200.1 26383257 4 1418305 1418420 Parasponia andersonii 3476 TCG|GTATGGTGCA...AAGACCTTAACA/AAGACCTTAACA...AACAG|GCT 0 1 88.605
146244020 GT-AG 0 1.000000099473604e-05 140 rna-gnl|WGS:JXTB|PanWU01x14_001200.1 26383257 5 1418529 1418668 Parasponia andersonii 3476 GAG|GTAAATTAAT...TTCCCTTTTACT/ATTTTATTTATT...GACAG|CTT 0 1 94.728

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]);