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 = 22631636

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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
122792416 GT-AG 0 2.35949871829222 172 rna-XM_009420353.2 22631636 2 21808810 21808981 Musa acuminata 4641 AAG|GTATCTCTTA...TTTTCTTTGAAA/TTGTCTCTGACA...TTCAG|GTT 0 1 62.103
122792417 GT-AG 0 5.9839383517645085e-05 101 rna-XM_009420353.2 22631636 3 21809105 21809205 Musa acuminata 4641 AAG|GTAAACATCT...TTCCCCTTCACA/ACATTTGTGATA...TTTAG|GAA 0 1 65.36
122792418 GT-AG 0 1.3672840619553686e-05 225 rna-XM_009420353.2 22631636 4 21809722 21809946 Musa acuminata 4641 ATG|GTAATTGATA...GCTGTCTTAACA/TATATAATAATT...TGCAG|AGT 0 1 79.025
122792419 GT-AG 0 1.000000099473604e-05 81 rna-XM_009420353.2 22631636 5 21810017 21810097 Musa acuminata 4641 CTG|GTAAGGAAAT...CTAGTTTTGATC/CTAGTTTTGATC...TACAG|ATG 1 1 80.879
122792420 GT-AG 0 1.000000099473604e-05 180 rna-XM_009420353.2 22631636 6 21810238 21810417 Musa acuminata 4641 CCG|GTAATTGTGA...TCGACTTTATTA/TTATTATTGATT...TGCAG|TCA 0 1 84.587
122792421 GT-AG 0 1.000000099473604e-05 538 rna-XM_009420353.2 22631636 7 21810730 21811267 Musa acuminata 4641 GTG|GTAAGTGCAA...TATTTTTTAAAG/GTTTGTCTGATT...TGTAG|CAT 0 1 92.85
122802433 GT-AG 0 1.000000099473604e-05 5435 rna-XM_009420353.2 22631636 1 21801223 21806657 Musa acuminata 4641 AAG|GTTCGAACCC...TATTTCTTTATG/TTATGGTTCATT...TACAG|CTT   0 5.773

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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]);