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 = 8392250

✎ 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
45169387 GT-AG 0 0.3326781452771473 649 rna-XM_004488831.3 8392250 1 44350900 44351548 Cicer arietinum 3827 CAG|GTACCTTTTT...TTTTTCTTTTCA/TTTCTTTTCATT...GGTAG|CAT 1 1 3.56
45169388 GT-AG 0 1.000000099473604e-05 120 rna-XM_004488831.3 8392250 2 44350430 44350549 Cicer arietinum 3827 GAG|GTTAGTAACG...TTTCTTTTAATT/TTTCTTTTAATT...TGCAG|AAG 0 1 14.118
45169389 GT-AG 0 1.000000099473604e-05 145 rna-XM_004488831.3 8392250 3 44350231 44350375 Cicer arietinum 3827 GAG|GTTCTTGACA...AATGTATTAATA/AATGTATTAATA...CGTAG|GCC 0 1 15.747
45169390 GT-AG 0 1.778988827427386e-05 530 rna-XM_004488831.3 8392250 4 44349632 44350161 Cicer arietinum 3827 GCT|GTAAGTCTGG...TATGGCTTAAGG/GTACATCTGATG...TGTAG|GTG 0 1 17.828
45169391 GT-AG 0 1.000000099473604e-05 760 rna-XM_004488831.3 8392250 5 44346631 44347390 Cicer arietinum 3827 AAG|GTACAACTTT...CATATTTTAAAA/CCTATTCTCATC...TGCAG|GTC 0 1 85.43
45169392 GT-AG 0 5.450654088075901e-05 489 rna-XM_004488831.3 8392250 6 44346070 44346558 Cicer arietinum 3827 GCT|GTAAGTAACT...CTTCATTTGACT/CTTCATTTGACT...ATCAG|ATT 0 1 87.602

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]);