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 = 20745211

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Suggested facets: score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
111171638 GT-AG 0 0.4966169258194191 143 rna-XM_044638367.1 20745211 2 3021807 3021949 Mangifera indica 29780 CAG|GTATCATTCC...AAAATTTTAATA/AATTGTTTCATT...AATAG|ATC 0 1 13.188
111171639 GT-AG 0 0.0007133169005424 117 rna-XM_044638367.1 20745211 3 3022037 3022153 Mangifera indica 29780 ATG|GTAGGTTTCT...AACTCCTTATCC/TATCATCTGATC...TCTAG|GTT 0 1 15.233
111171640 GT-AG 0 1.000000099473604e-05 71 rna-XM_044638367.1 20745211 4 3022265 3022335 Mangifera indica 29780 CTG|GTAAGGTTTT...TTGGTGTTGAAT/CAAATTATCACT...TTCAG|GAG 0 1 17.842
111171641 GT-AG 0 0.0005833436191322 1162 rna-XM_044638367.1 20745211 5 3022546 3023707 Mangifera indica 29780 CAG|GTACATCTCT...GTTCTCTTATTC/TCTTTGTTAACT...TGCAG|CAA 0 1 22.779
111171642 GT-AG 0 3.55750468187727e-05 130 rna-XM_044638367.1 20745211 6 3023885 3024014 Mangifera indica 29780 CAG|GTTTTATTCT...GTATTCTGATCA/TGTATTCTGATC...AACAG|GTA 0 1 26.939
111171643 GT-AG 0 0.0012529725636718 257 rna-XM_044638367.1 20745211 7 3026745 3027001 Mangifera indica 29780 CAG|GTACATTTTG...GATTTCTTTATT/GATTTCTTTATT...GACAG|GGT 0 1 91.114
111181610 GT-AG 0 1.000000099473604e-05 639 rna-XM_044638367.1 20745211 1 3020349 3020987 Mangifera indica 29780 GAG|GTAAAGATTA...TTATCTTTATCA/CTTTTGTTTATC...ATCAG|GAT   0 7.334

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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]);