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 = 4118549

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
21286935 GT-AG 0 1.000000099473604e-05 131 rna-XM_006675522.1 4118549 1 4185498 4185628 Batrachochytrium dendrobatidis 109871 TGG|GTAAGAAATC...TTATCCTGGACA/TGTGAATTTATC...TGTAG|TTC 0 1 11.872
21286936 GT-AG 0 0.0005901940161117 74 rna-XM_006675522.1 4118549 2 4185152 4185225 Batrachochytrium dendrobatidis 109871 TTC|GTAAGCAGTT...TGACTCTTGATT/TCTGTTTTTATC...TTTAG|GCG 2 1 19.728
21286937 GT-AG 0 4.283667698112399e-05 84 rna-XM_006675522.1 4118549 3 4184865 4184948 Batrachochytrium dendrobatidis 109871 TCG|GTAAGTTGGG...CATGTTTTGATT/CATGTTTTGATT...AATAG|ATG 1 1 25.592
21286938 GT-AG 0 1.000000099473604e-05 114 rna-XM_006675522.1 4118549 4 4184675 4184788 Batrachochytrium dendrobatidis 109871 TGG|GTAAGCCATA...GAGTGCTTATAT/TTATATTTTATG...TATAG|AGT 2 1 27.787
21286939 GT-AG 0 1.000000099473604e-05 95 rna-XM_006675522.1 4118549 5 4183817 4183911 Batrachochytrium dendrobatidis 109871 CAG|GTGATTTGCA...TTTGCTTGAGCA/ACTTTTTTCAAA...TGCAG|GGT 0 1 49.827
21286940 GT-AG 0 0.0033503814542955 148 rna-XM_006675522.1 4118549 6 4183525 4183672 Batrachochytrium dendrobatidis 109871 CCA|GTATTAAGAT...TGAATCTTAATC/AACATTTTTATA...ACTAG|CCT 0 1 53.986
21286941 GT-AG 0 0.0029555606741968 91 rna-XM_006675522.1 4118549 7 4183215 4183305 Batrachochytrium dendrobatidis 109871 AAG|GTATTTACCA...CATGTTTTAACA/CATGTTTTAACA...CTTAG|AAT 0 1 60.312

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]);