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 = 5879295

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
29939893 GT-AG 0 1.000000099473604e-05 328 rna-XM_014936888.1 5879295 1 1842285 1842612 Calidris pugnax 198806 CAG|GTAGAAGTGA...TTATTTTTTGCA/TTTGGGGTTATT...TTCAG|GGT 0 1 2.694
29939894 GT-AG 0 0.0003504758028912 2096 rna-XM_014936888.1 5879295 2 1840056 1842151 Calidris pugnax 198806 CAT|GTTTGTATTT...TAAGATTTAATG/AATGATCTGATA...CCCAG|CTG 1 1 17.621
29939895 GT-AG 0 1.000000099473604e-05 2015 rna-XM_014936888.1 5879295 3 1837834 1839848 Calidris pugnax 198806 CAG|GTAAAATGCT...ATCCTTTTAACT/ATCCTTTTAACT...CTTAG|GTG 1 1 40.853
29939896 GT-AG 0 1.000000099473604e-05 586 rna-XM_014936888.1 5879295 4 1837138 1837723 Calidris pugnax 198806 GGG|GTAGGAAATG...AGATTTTCAGTT/GAGATTTTCAGT...CTCAG|GCA 0 1 53.199
29939897 GT-AG 0 1.000000099473604e-05 931 rna-XM_014936888.1 5879295 6 1836092 1837022 Calidris pugnax 198806 CAG|GTGAGTCGCG...GGCCTTTTATCT/AGGCCTTTTATC...TTTAG|AAA 2 1 65.881
29939898 GT-AG 0 1.000000099473604e-05 459 rna-XM_014936888.1 5879295 7 1835554 1836012 Calidris pugnax 198806 AAC|GTGAGTAACT...TCGTTCTTTTCT/ACGTCACACATC...TGCAG|GTG 0 1 74.747
29939899 GC-AG 0 1.000000099473604e-05 5314 rna-XM_014936888.1 5879295 8 1830069 1835382 Calidris pugnax 198806 CAG|GCAATAGCAC...TGTCCCCTGCCT/GCGATGCTGATG...TGCAG|GTG 0 1 93.939

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]);