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 = 32241382

✎ 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
180024663 GT-AG 0 0.0124147140966184 66 rna-XM_035733931.1 32241382 2 1200348 1200413 Schistosoma haematobium 6185 ATT|GTATGTAATC...TCCACTTTATTA/TTTATTATTATT...TACAG|CTA 1 1 11.486
180024664 GT-AG 0 0.003669353355753 38 rna-XM_035733931.1 32241382 3 1200186 1200223 Schistosoma haematobium 6185 ACA|GTATGTTTAT...TTTTCTGAAAAG/GAAAAGATAACA...TTTAG|GAC 2 1 23.456
180024665 GT-AG 0 0.0003536647210591 69 rna-XM_035733931.1 32241382 4 1200009 1200077 Schistosoma haematobium 6185 TCG|GTAACAAAAC...TTATTCTTATCT/ATTTTATTTATT...TATAG|TTA 2 1 33.88
180024666 GT-AG 0 1.000000099473604e-05 2540 rna-XM_035733931.1 32241382 5 1197276 1199815 Schistosoma haematobium 6185 CAG|GTAATTAAAA...ATTACTTTAAAT/AAATAATTCATT...AATAG|GCT 0 1 52.51
180024667 GT-AG 0 1.000000099473604e-05 10846 rna-XM_035733931.1 32241382 6 1186256 1197101 Schistosoma haematobium 6185 CAG|GTGAGTTAAT...TGCTTCTTAATG/TTTTTTCTAAAT...TTTAG|ATA 0 1 69.305
180024668 GT-AG 0 1.000000099473604e-05 759 rna-XM_035733931.1 32241382 7 1185358 1186116 Schistosoma haematobium 6185 AAG|GTAAATAAAT...TTTATTGTGACC/TTTATTGTGACC...TCCAG|CTC 1 1 82.722
180024704 GT-AG 0 0.0115400354284911 2682 rna-XM_035733931.1 32241382 1 1200498 1203179 Schistosoma haematobium 6185 TGT|GTATGTCATA...GTTTTCTTTTCG/CAGCTTGTAACT...TTCAG|TCC   0 5.019

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]);