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)

6 rows where transcript_id = 9129095

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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
49484827 GT-AG 0 0.0001386499703951 22752 rna-XM_004673789.2 9129095 3 56708725 56731476 Condylura cristata 143302 TTG|GTAGATTTTT...TGTGGTTTATTT/GTTATACTCATG...TACAG|GTT 2 1 18.608
49484828 GT-AG 0 5.019650059531154e-05 2768 rna-XM_004673789.2 9129095 4 56731731 56734498 Condylura cristata 143302 AAG|GTACATGTGA...ATAGTCTTAGTC/ATTGTTTTCATC...TTCAG|GGT 1 1 26.988
49484829 GT-AG 0 0.0574550155091222 2945 rna-XM_004673789.2 9129095 5 56734739 56737683 Condylura cristata 143302 CAG|GTATCGTGAA...CTTGTTTTAATT/CTTGTTTTAATT...CTTAG|GAT 1 1 34.906
49484830 GT-AG 0 0.0001125510929791 2562 rna-XM_004673789.2 9129095 6 56737892 56740453 Condylura cristata 143302 CTG|GTATGACACA...AACCTCTTAACT/GTTATTTTCACT...TTCAG|GTA 2 1 41.768
49488674 GT-AG 0 1.000000099473604e-05 36269 rna-XM_004673789.2 9129095 1 56622031 56658299 Condylura cristata 143302 AGG|GTAAGTCCAC...AACCTCTTATCT/CTTATCTTCATT...TATAG|TAT   0 2.672
49488675 GT-AG 0 1.000000099473604e-05 49889 rna-XM_004673789.2 9129095 2 56658367 56708255 Condylura cristata 143302 CTG|GTAAGTCTCC...ACTGCCTTCTTT/CAGTGGTTAACT...TGTAG|GAT   0 4.883

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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]);