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 = 2065666

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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
11203569 GT-AG 0 1.000000099473604e-05 3042 rna-XM_010162298.2 2065666 1 32189 35230 Antrostomus carolinensis 279965 TTT|GTAAGTAAAG...TGCATGTTATTT/GCTCCTCTCATG...TACAG|GTT 1 1 32.875
11203570 GT-AG 0 1.000000099473604e-05 2678 rna-XM_010162298.2 2065666 2 35357 38034 Antrostomus carolinensis 279965 AAG|GTAAGAATAT...AATTCCTGAAAT/TAATTCCTGAAA...TACAG|GAG 1 1 41.126
11203571 GT-AG 0 1.000000099473604e-05 962 rna-XM_010162298.2 2065666 3 38180 39141 Antrostomus carolinensis 279965 GAG|GTAAATGATG...TATTCCTTATTC/ATATTCCTTATT...TACAG|GAA 2 1 50.622
11203572 GT-AG 0 4.322425766027376e-05 759 rna-XM_010162298.2 2065666 4 39266 40024 Antrostomus carolinensis 279965 GGG|GTAAGTTGTA...ATATGCTTAACG/ATGGGCCTCACT...TACAG|ACA 0 1 58.743
11203573 GT-AG 0 0.0002349504651898 297 rna-XM_010162298.2 2065666 5 40129 40425 Antrostomus carolinensis 279965 TAG|GTATGAAATA...TATTCCTTAGCT/AATTTTCTTATT...TTAAG|GCT 2 1 65.553
11203574 GT-AG 0 1.000000099473604e-05 300 rna-XM_010162298.2 2065666 6 40523 40822 Antrostomus carolinensis 279965 AAT|GTAAGTGACA...ATGCCTTTATTT/TTTATTTTCACA...TCTAG|GGC 0 1 71.906
11203575 GT-AG 0 1.000000099473604e-05 1893 rna-XM_010162298.2 2065666 7 40973 42865 Antrostomus carolinensis 279965 AAA|GTAAGTAAAC...CATCTTTTAATA/TGAATTTTTATT...CACAG|CTT 0 1 81.729
11203576 GT-AG 0 1.000000099473604e-05 722 rna-XM_010162298.2 2065666 9 43054 43775 Antrostomus carolinensis 279965 CTG|GTAAGCAACA...TATATTATAACT/CTTTGTCTCACA...TACAG|CTA 1 1 93.975

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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]);