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 = 34091325

✎ 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
190849941 GT-AG 0 0.0014280839948405 6204 rna-XM_013252686.1 34091325 1 1743876 1750079 Stomoxys calcitrans 35570 CAT|GTAGTTTAGA...TGTTTTTTATTT/GTGTTTTTTATT...GCCAG|ACA 2 1 3.79
190849942 GT-AG 0 1.000000099473604e-05 19224 rna-XM_013252686.1 34091325 2 1750204 1769427 Stomoxys calcitrans 35570 AAA|GTGAGTGGGT...TACCCCATATCC/GGTTTAGTTACC...TGCAG|GAC 0 1 10.702
190849943 GT-AG 0 1.000000099473604e-05 61 rna-XM_013252686.1 34091325 3 1769526 1769586 Stomoxys calcitrans 35570 CAA|GTGAGCAAAA...ATTTTCTTGCCT/TGGGCATTAAGG...TGCAG|CTG 2 1 16.165
190849944 GT-AG 0 0.0001606873194919 64 rna-XM_013252686.1 34091325 4 1769768 1769831 Stomoxys calcitrans 35570 GCT|GTAAGTTATC...TTCATTTTAAGA/TTTCATTTCATT...TTCAG|CTT 0 1 26.254
190849945 GT-AG 0 1.8034983595076783e-05 62 rna-XM_013252686.1 34091325 5 1769969 1770030 Stomoxys calcitrans 35570 CAC|GTAGGTCAAT...TTATTTTTATTA/TTTATTTTTATT...TGCAG|CTT 2 1 33.891
190849946 GT-AG 0 1.5024679881672647e-05 2519 rna-XM_013252686.1 34091325 6 1770199 1772717 Stomoxys calcitrans 35570 AAG|GTAGGTTTGG...ATGACATTAAAT/ATTAAATTTACC...TGCAG|AAT 2 1 43.255
190849947 GT-AG 0 1.000000099473604e-05 2864 rna-XM_013252686.1 34091325 7 1773347 1776210 Stomoxys calcitrans 35570 CAG|GTAAGTAGCA...TTAATTTTAAAT/TTGATTTTTATA...TTCAG|ACA 1 1 78.317

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]);