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)

5 rows where transcript_id = 29376534

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, 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
163593708 GT-AG 0 0.0239250847120795 1044 rna-XM_008236541.2 29376534 1 16057547 16058590 Prunus mume 102107 CTG|GTATACATTC...TTGATGTTAATA/TTGATGTTAATA...TATAG|GTA 2 1 13.68
163593709 GT-AA 0 1.000000099473604e-05 92 rna-XM_008236541.2 29376534 2 16056368 16056459 Prunus mume 102107 ACA|GTAAGGGGAC...TATTCTTTATCC/CTATTCTTTATC...GATAA|GGA 0 1 43.6
163593710 GT-AG 0 0.0010914347282744 82 rna-XM_008236541.2 29376534 3 16056013 16056094 Prunus mume 102107 AAG|GTATGTTATT...TTTTTTTTGCTT/TTGAAGCTAATT...GACAG|GTT 0 1 51.115
163593711 GT-AG 0 0.081520887939868 81 rna-XM_008236541.2 29376534 4 16055041 16055121 Prunus mume 102107 GTG|GTCTCTCTCT...AGTGTTTTGATG/TTGTTTTTTATG...TGCAG|GAA 0 1 75.64
163605001 GT-AG 0 0.0007164382852652 140 rna-XM_008236541.2 29376534 5 16054234 16054373 Prunus mume 102107 GTG|GTACTATTAA...TTTGTCTTAGTT/CTTTACTTCATT...TGTAG|GGA   0 93.999

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]);