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 = 29402328

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, length, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
163706912 GT-AG 0 1.000000099473604e-05 271 rna-XM_007221758.2 29402328 2 40987402 40987672 Prunus persica 3760 TAG|GTTAGCTATG...AAACTGTTGACT/AAACTGTTGACT...CACAG|GGA 2 1 11.304
163706913 GT-AG 0 3.8107064770098674e-05 976 rna-XM_007221758.2 29402328 3 40990734 40991709 Prunus persica 3760 CAG|GTATAAAAGA...GATATCTTACTA/TGATATCTTACT...AACAG|GCA 0 1 54.127
163706914 GT-AG 0 1.000000099473604e-05 271 rna-XM_007221758.2 29402328 4 40994255 40994525 Prunus persica 3760 CAG|GTAATTCACA...ATTCTGTTGATT/TGTTGATTTATT...TGCAG|CCG 1 1 89.731
163706915 GT-AG 0 1.000000099473604e-05 661 rna-XM_007221758.2 29402328 5 40994981 40995641 Prunus persica 3760 AAG|GTAATGGTTC...ACAGCTTTTATG/TCTATGCTTACA...ATTAG|GTA 0 1 96.097
163706916 GT-AG 0 1.000000099473604e-05 194 rna-XM_007221758.2 29402328 6 40995759 40995952 Prunus persica 3760 AAG|GTAATTAGTT...TTTTTCTTTTCA/TTTCTTTTCATT...TTCAG|ACA 0 1 97.734
163729408 GT-AG 0 1.000000099473604e-05 479 rna-XM_007221758.2 29402328 1 40986823 40987301 Prunus persica 3760 GTG|GTGAGGTATT...CCACATTTGATA/CCACATTTGATA...TTCAG|GTG   0 10.311

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]);