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 = 29563955

✎ 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
164840279 GT-AG 0 0.0607570340990742 121 rna-XM_010076429.1 29563955 1 247 367 Pterocles gutturalis 240206 CGG|GTACCCGCTG...CCCACCCTGATG/CCCACCCTGATG...GCCAG|ACG 1 1 20.932
164840280 GT-AG 0 1.000000099473604e-05 142 rna-XM_010076429.1 29563955 2 431 572 Pterocles gutturalis 240206 ATG|GTGAGGCATT...GTCCCCTTCTCC/CCCAGAGTGACC...GCCAG|ACC 1 1 26.473
164840281 GT-AG 0 1.000000099473604e-05 499 rna-XM_010076429.1 29563955 3 692 1190 Pterocles gutturalis 240206 AAG|GTGGGCAAGC...CCTCCCTTGTCC/GAGACCCCCATC...CACAG|GCG 0 1 36.939
164840282 GT-AG 0 1.000000099473604e-05 400 rna-XM_010076429.1 29563955 4 1402 1801 Pterocles gutturalis 240206 CAG|GTGAGAGCCG...CTGTCCCTGCTG/AGGACACCCATG...TCCAG|GCT 1 1 55.497
164840283 GT-AG 0 1.000000099473604e-05 94 rna-XM_010076429.1 29563955 5 2026 2119 Pterocles gutturalis 240206 GAG|GTGAGTGGGA...TGCCCCCTGCCC/GAGGCTGTCAGC...TCCAG|GTT 0 1 75.198
164840284 GT-AG 0 1.000000099473604e-05 394 rna-XM_010076429.1 29563955 6 2257 2650 Pterocles gutturalis 240206 CAG|GTATGGGGCG...GGTTTCTGTTCC/GTCTATCCCATC...GAAAG|GAA 2 1 87.247

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]);