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 = 14452903

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
77225478 GT-AG 0 0.0025607164154903 108 rna-XM_028658149.1 14452903 1 776596 776703 Exaiptasia diaphana 2652724 TTA|GTCTGTTCAA...AAAACCTTATTC/ACCTTATTCATG...TTCAG|GAC 1 1 16.704
77225479 GT-AG 0 1.000000099473604e-05 286 rna-XM_028658149.1 14452903 2 776241 776526 Exaiptasia diaphana 2652724 TAG|GTAAGACATC...TTTATCTTAAAC/CTAAATTTTATC...TTAAG|ACT 1 1 21.803
77225480 GT-AG 0 1.000000099473604e-05 216 rna-XM_028658149.1 14452903 3 775934 776149 Exaiptasia diaphana 2652724 GAG|GTCAGTTTGT...AAATCTGTATTT/AATTGATTCAAA...AATAG|AGA 2 1 28.529
77225481 GT-AG 0 1.000000099473604e-05 2148 rna-XM_028658149.1 14452903 4 773714 775861 Exaiptasia diaphana 2652724 AAG|GTGAGTTATT...ATCTCTTCAATA/GTTGCTCTCATT...TTCAG|ACC 2 1 33.851
77225482 GT-AG 0 3.418393703132349e-05 71 rna-XM_028658149.1 14452903 5 773557 773627 Exaiptasia diaphana 2652724 CGA|GTAAGATTTC...TATCCCTTTACT/CTAGTACTGACA...TTTAG|GTC 1 1 40.207
77225483 GT-AG 0 1.000000099473604e-05 94 rna-XM_028658149.1 14452903 6 773425 773518 Exaiptasia diaphana 2652724 ACG|GTGGGTACTT...CATGTTTTATTT/ACATGTTTTATT...TACAG|ATG 0 1 43.016
77225484 GT-AG 0 1.000000099473604e-05 273 rna-XM_028658149.1 14452903 7 773080 773352 Exaiptasia diaphana 2652724 GAG|GTAAGCAAGT...TTTTTCATATTT/CTATTTTTCATA...TTCAG|AAA 0 1 48.337

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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]);