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 = 22631652

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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
122792641 GT-AG 0 1.000000099473604e-05 9547 rna-XM_009419992.2 22631652 1 20861285 20870831 Musa acuminata 4641 GAG|GTAGGGTCTC...TCTCCTGTAGCT/TTGAGTTTCATT...TGCAG|GTC 0 1 9.732
122792642 GT-AG 0 0.0003949583022725 3398 rna-XM_009419992.2 22631652 2 20871525 20874922 Musa acuminata 4641 ACT|GTAAGTCTCA...CTTTTTTTAATG/CTTTTTTTAATG...GACAG|GTG 0 1 30.357
122792643 GT-AG 0 3.0338530843609247e-05 90 rna-XM_009419992.2 22631652 3 20875703 20875792 Musa acuminata 4641 GGG|GTAAGCTATA...TGGGCCTTTCTG/CAGTAAATGATT...GGTAG|GTG 0 1 53.571
122792644 GT-AG 0 0.0006860371911188 105 rna-XM_009419992.2 22631652 4 20876005 20876109 Musa acuminata 4641 CAC|GTACGTTGAC...TCACCTTTATTC/CCTTTATTCACT...TGCAG|TAT 2 1 59.881
122792645 GT-AG 0 1.000000099473604e-05 4741 rna-XM_009419992.2 22631652 5 20876485 20881225 Musa acuminata 4641 TGA|GTAAGTACCT...GTTTCTGTGAAA/TTGTATCTAATG...GGCAG|GTA 2 1 71.042
122792646 GT-AG 0 1.000000099473604e-05 83 rna-XM_009419992.2 22631652 6 20881384 20881466 Musa acuminata 4641 ATG|GTAAAATGAT...TACTTCTGAATT/GTACTTCTGAAT...GTCAG|ATC 1 1 75.744
122792647 GT-AG 0 1.000000099473604e-05 82 rna-XM_009419992.2 22631652 7 20881631 20881712 Musa acuminata 4641 TGG|GTGGGTAAAT...CTTTCCCTGACT/CTTTCCCTGACT...TGTAG|ATC 0 1 80.625
122792648 GT-AG 0 9.337917863325064e-05 178 rna-XM_009419992.2 22631652 8 20881860 20882037 Musa acuminata 4641 TTG|GTATAGCCAA...GCATTCTTACTA/TGATTACTAATC...AACAG|GTG 0 1 85.0

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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]);