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 = 26996165

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
150093597 GT-AG 0 1.000000099473604e-05 53 rna-gnl|WGS:JABANP|FOZ60_000012-T1_mrna 26996165 1 40003 40055 Perkinsus olseni 32597 GAT|GTGAGGCTGT...ATCGCGTTATCA/CGCGTTATCACA...CTCAG|ATT 2 1 46.702
150093598 GT-AG 0 0.0001455521522416 49 rna-gnl|WGS:JABANP|FOZ60_000012-T1_mrna 26996165 2 40245 40293 Perkinsus olseni 32597 AAC|GTAATCACCA...CCACTCTTTATG/CCACTCTTTATG...AACAG|GTA 2 1 63.547
150093599 GT-AG 0 1.000000099473604e-05 53 rna-gnl|WGS:JABANP|FOZ60_000012-T1_mrna 26996165 3 40382 40434 Perkinsus olseni 32597 AGA|GTGAGTCGTT...TGTCCTCTATTC/CTCTATTCGATA...TTCAG|GTA 0 1 71.39
150093600 GT-AG 0 6.654621768888283e-05 47 rna-gnl|WGS:JABANP|FOZ60_000012-T1_mrna 26996165 4 40548 40594 Perkinsus olseni 32597 ATG|GTCACCCCAC...TCGACTTTGGTC/AATCTATCGACT...CTCAG|GTT 2 1 81.462
150093601 GT-AG 0 1.000000099473604e-05 78 rna-gnl|WGS:JABANP|FOZ60_000012-T1_mrna 26996165 5 40731 40808 Perkinsus olseni 32597 CAT|GTGAGTTCAT...GTGTCCTTATCG/GGTGTCCTTATC...CTCAG|TCC 0 1 93.583

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]);