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)

8 rows where transcript_id = 23617095

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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
128510781 GT-AG 0 1.000000099473604e-05 1153 rna-XM_019391547.1 23617095 1 52537150 52538302 Nicotiana attenuata 49451 CAG|GTGAAATGGA...TTTATCTTACTG/TTTTATCTTACT...TGTAG|GAC 0 1 20.969
128510782 GT-AG 0 0.0136330911912837 85 rna-XM_019391547.1 23617095 2 52539715 52539799 Nicotiana attenuata 49451 CAG|GTATATGTTT...TTCATCTTAACC/TTCATCTTAACC...AGCAG|CGC 2 1 67.524
128510783 GT-AG 0 0.0318289832360992 139 rna-XM_019391547.1 23617095 3 52539942 52540080 Nicotiana attenuata 49451 AAG|GTATGCTCCT...TTCTTCTTGCCT/ATAGGTCTCATA...CCCAG|TTT 0 1 72.206
128510784 GT-AG 0 0.8887273736685056 882 rna-XM_019391547.1 23617095 4 52540189 52541070 Nicotiana attenuata 49451 AAG|GTATCTTAGT...TAGGTTTTGACT/TAGGTTTTGACT...TTCAG|GCC 0 1 75.767
128510785 GT-AG 0 1.000000099473604e-05 88 rna-XM_019391547.1 23617095 5 52541284 52541371 Nicotiana attenuata 49451 CAG|GTCAAAGATT...TGTTTCTAAATT/TTGTTTCTAAAT...GACAG|AGA 0 1 82.789
128510786 GT-AG 0 0.001518990152479 643 rna-XM_019391547.1 23617095 6 52541483 52542125 Nicotiana attenuata 49451 CAG|GTTTGCTCTA...AGTGTTTTAGCT/CTCTCTCTAATG...TACAG|CAT 0 1 86.449
128510787 GT-AG 0 0.0002390142422361 1314 rna-XM_019391547.1 23617095 7 52542321 52543634 Nicotiana attenuata 49451 CAG|GTTTGTTTTT...CTTGTATTAACT/CTTGTATTAACT...TGCAG|GCA 0 1 92.878
128510788 GT-AG 0 0.3688999339490595 602 rna-XM_019391547.1 23617095 8 52543810 52544411 Nicotiana attenuata 49451 GAG|GTATTCTTTT...GTGCTTTTATAA/GCTTTTATAATT...TGCAG|AGA 1 1 98.648

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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]);