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 = 12947908

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, 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
69095465 GT-AG 0 1.000000099473604e-05 124 rna-XM_010938059.1 12947908 2 40053079 40053202 Elaeis guineensis 51953 CAA|GTTAGTGTGA...TTATTCTAATTG/CTTATTCTAATT...TCTAG|TGG 1 1 18.553
69095466 GT-AG 0 1.7377286365307508e-05 72 rna-XM_010938059.1 12947908 3 40053386 40053457 Elaeis guineensis 51953 CAG|GTACTTCCGC...GCTCTATTAACT/TATTAACTAACA...TGTAG|GTC 1 1 23.474
69095467 GT-AG 0 1.000000099473604e-05 1708 rna-XM_010938059.1 12947908 4 40055988 40057695 Elaeis guineensis 51953 CAG|GTAGAAGAAA...TTATTCTAATCT/ATTATTCTAATC...TATAG|GTT 2 1 91.503
69095468 GT-AG 0 1.000000099473604e-05 182 rna-XM_010938059.1 12947908 5 40057812 40057993 Elaeis guineensis 51953 ACG|GTGAAATTCT...ATTTCTTTGATT/ATTTCTTTGATT...CGCAG|GTA 1 1 94.622
69095469 GT-AG 0 0.0003272942500642 1241 rna-XM_010938059.1 12947908 6 40058086 40059326 Elaeis guineensis 51953 GAG|GTAACATCTA...TCTTTCATAATT/TAATTATTGAAT...TGTAG|GAT 0 1 97.096
69105329 GT-AG 0 1.000000099473604e-05 4508 rna-XM_010938059.1 12947908 1 40048100 40052607 Elaeis guineensis 51953 AGA|GTGAGTATAT...TTTATATTATTG/ACTTGATTTATA...AGCAG|ATC   0 6.588

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]);