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 = 17888355

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
95730268 GT-AG 0 0.000570450823711 157 rna-XM_002163684.4 17888355 1 14490285 14490441 Hydra vulgaris 6087 AAA|GTAACAATTT...GTTTTTATATCC/GTTTGTTTCAAG...TTTAG|ATT 1 1 16.979
95730269 GT-AG 0 0.0015163638941546 1772 rna-XM_002163684.4 17888355 2 14487544 14489315 Hydra vulgaris 6087 TTG|GTATAATTTT...AATTTGTTAAAT/TTTAAACTCATT...TTTAG|GGC 1 1 42.214
95730270 GT-AG 0 3.383506623935854e-05 85 rna-XM_002163684.4 17888355 3 14487243 14487327 Hydra vulgaris 6087 CTG|GTAGATTAAT...TATGTTTTATTA/GTTTTATTAATT...TTTAG|GTG 1 1 47.839
95730271 GT-AG 0 1.000000099473604e-05 87 rna-XM_002163684.4 17888355 4 14487013 14487099 Hydra vulgaris 6087 TTG|GTAATAAAAT...CTGTTTTTATCC/ACTGTTTTTATC...ATTAG|GGT 0 1 51.562
95730272 GT-AG 0 0.000521108582303 95 rna-XM_002163684.4 17888355 5 14486413 14486507 Hydra vulgaris 6087 AAG|GTTTATTGTA...AAATCTTTATTA/AAATGTTTTATC...TTTAG|GTA 1 1 64.714
95730273 GT-AG 0 0.1381687981625304 86 rna-XM_002163684.4 17888355 6 14486145 14486230 Hydra vulgaris 6087 CAA|GTATTCTAAA...TTTTTTTTGTCA/AAATTTTTCAGA...GTTAG|ATG 0 1 69.453
95730274 GT-AG 0 0.0002445261512716 11997 rna-XM_002163684.4 17888355 7 14473842 14485838 Hydra vulgaris 6087 AAG|GTATATGCAT...TGAGTCTTATTT/AACTTTTTTATT...TTTAG|ATG 0 1 77.422

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]);