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 = 14424097

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: 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
77102443 GT-AG 0 0.000459710608906 102 rna-XM_024149903.1 14424097 3 10320590 10320691 Eutrema salsugineum 72664 CTG|GTATAAACTA...AGCTCTTTAATG/TTTAATGTCACA...ATTAG|GTG 2 1 12.589
77102444 GT-AG 0 0.0001192988185143 4140 rna-XM_024149903.1 14424097 5 10321814 10325953 Eutrema salsugineum 72664 ACC|GTAAGTTTTC...GTGATTTTTTTT/TTTCGTGTGATT...TTCAG|GGC 0 1 43.375
77102445 GT-AG 0 2.9985161996090924e-05 163 rna-XM_024149903.1 14424097 7 10326222 10326384 Eutrema salsugineum 72664 CAG|GTACTATAGT...TTATTTTTATTT/TTTATTTTTATT...TTCAG|CCA 0 1 50.715
77102446 GT-AG 0 3.1465068681197595e-05 67 rna-XM_024149903.1 14424097 8 10326844 10326910 Eutrema salsugineum 72664 CAG|GTACATTGTT...TGAAACATAACA/TTGAATGTCATA...TTCAG|TCG 0 1 63.332
77114425 GT-AG 0 1.000000099473604e-05 121 rna-XM_024149903.1 14424097 9 10328193 10328313 Eutrema salsugineum 72664 CGG|GTAAAGCTTT...TTGGTTTTATTA/TTTGGTTTTATT...TGTAG|ATT   0 98.571

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]);