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 = 23404173

✎ 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
127495778 GT-AG 0 1.000000099473604e-05 615 rna-XM_024753364.1 23404173 1 1459295 1459909 Neophocaena asiaeorientalis 189058 CCG|GTAAGTATTT...AAAGCAATAACA/TTGATACTAAAA...AACAG|ACA 0 1 22.26
127495779 GT-AG 0 1.000000099473604e-05 1565 rna-XM_024753364.1 23404173 2 1457628 1459192 Neophocaena asiaeorientalis 189058 GTG|GTAAGCAAAT...TCATTCTAAATA/ATTTGGCTAACA...TTTAG|GAC 0 1 33.904
127495780 GT-AG 0 1.000000099473604e-05 8957 rna-XM_024753364.1 23404173 3 1448583 1457539 Neophocaena asiaeorientalis 189058 TGG|GTGAGTCCAG...AATGTTTTAATT/TTTTAATTCATT...TTTAG|GTC 1 1 43.95
127495781 GT-AG 0 0.0004522119060798 3639 rna-XM_024753364.1 23404173 4 1444824 1448462 Neophocaena asiaeorientalis 189058 CTG|GTATGTAGTA...TTTATTTTACTT/GTTTATTTTACT...TTTAG|GGC 1 1 57.648
127495782 GT-AG 0 1.000000099473604e-05 8753 rna-XM_024753364.1 23404173 5 1435998 1444750 Neophocaena asiaeorientalis 189058 TAG|GTAAGAATTT...TGCTCTTTTTCC/CTGCTTTTTATG...TTCAG|ACT 2 1 65.982
127495783 GT-AG 0 1.000000099473604e-05 2306 rna-XM_024753364.1 23404173 6 1433568 1435873 Neophocaena asiaeorientalis 189058 ACA|GTGAGTCCAA...CCCTCCTTGACC/CCCTCCTTGACC...AGCAG|CTT 0 1 80.137

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]);