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 = 22631588

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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
122791818 GT-AG 0 1.000000099473604e-05 92 rna-XM_009404753.2 22631588 2 10349933 10350024 Musa acuminata 4641 AAG|GTAAATATAG...ACTTCTTTATTC/AACTTCTTTATT...TACAG|AGG 0 1 46.633
122791819 GT-AG 0 0.0002362247287043 457 rna-XM_009404753.2 22631588 3 10350147 10350603 Musa acuminata 4641 AAG|GTACATCTTA...TAATGCTTGAAT/ATACTTCTAATG...TGCAG|CTA 2 1 48.865
122791820 GT-AG 0 1.000000099473604e-05 117 rna-XM_009404753.2 22631588 4 10352764 10352880 Musa acuminata 4641 CAG|GTTGTCGTTC...GTTTTTTTATTT/TGTTTTTTTATT...TTCAG|TAT 2 1 88.397
122791821 GT-AG 0 8.486298532456669e-05 82 rna-XM_009404753.2 22631588 5 10352930 10353011 Musa acuminata 4641 AAG|GTTTGTTCAT...CTAGCCTTATTT/ACTAGCCTTATT...AATAG|GTG 0 1 89.294
122791822 GT-AG 0 2.100240326439082e-05 218 rna-XM_009404753.2 22631588 6 10353260 10353477 Musa acuminata 4641 TAT|GTAAGGATTG...TCCACCTTAACA/AAAATCTTCAAT...TATAG|GAT 2 1 93.832
122791823 GT-AG 0 1.000000099473604e-05 2436 rna-XM_009404753.2 22631588 7 10353586 10356021 Musa acuminata 4641 AAG|GTACGAGCAG...ATGTACTTGATC/TCTATTTTCATT...TTCAG|GTT 2 1 95.809
122802388 GT-AG 0 3.703731088012784e-05 2460 rna-XM_009404753.2 22631588 1 10344807 10347266 Musa acuminata 4641 GTG|GTAGGTTCTG...AAAATTTTGATC/TATATTTTTATA...TATAG|GAA   0 5.454

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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]);