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)

7 rows where transcript_id = 14424095

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
77102433 GT-AG 0 0.0001968526658942 91 rna-XM_024149896.1 14424095 1 8498970 8499060 Eutrema salsugineum 72664 CAG|GTATATATAA...TAGGTCTAAAAA/TTAGGTCTAAAA...TGTAG|TCG 0 1 26.241
77102434 GT-AG 0 1.000000099473604e-05 78 rna-XM_024149896.1 14424095 2 8498764 8498841 Eutrema salsugineum 72664 CAG|GTAAATTTGA...GAGATATTAGTG/ATATTAGTGAAG...TGCAG|GGA 2 1 29.829
77102435 GT-AG 0 1.2137982660126791e-05 63 rna-XM_024149896.1 14424095 3 8498400 8498462 Eutrema salsugineum 72664 GCT|GTTTTAAGTG...AGTAGTTTAAGG/AGTAGTTTAAGG...TTCAG|AAA 0 1 38.267
77102436 GT-AG 0 0.0566953380775354 91 rna-XM_024149896.1 14424095 4 8496843 8496933 Eutrema salsugineum 72664 GAG|GTATATATCT...TTCACCTTAACT/TATTTGCTTATC...CGCAG|CCG 2 1 79.366
77102437 GT-AG 0 1.000000099473604e-05 91 rna-XM_024149896.1 14424095 5 8496379 8496469 Eutrema salsugineum 72664 TCT|GTGAGTTTAG...AAGATCTTACAC/TAAGATCTTACA...AACAG|ACA 0 1 89.823
77102438 GT-AG 0 1.000000099473604e-05 77 rna-XM_024149896.1 14424095 6 8496154 8496230 Eutrema salsugineum 72664 CTG|GTTAGTTTTA...AAAATTTCATTT/AAAAATTTCATT...TTTAG|GGT 1 1 93.973
77102439 GT-AG 0 1.000000099473604e-05 77 rna-XM_024149896.1 14424095 7 8495980 8496056 Eutrema salsugineum 72664 TAG|GTAAGTGCGT...GCGGTCTTGATT/GCGGTCTTGATT...TGCAG|GTG 2 1 96.692

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]);