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 = 14393861

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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
76886700 GT-AG 0 1.000000099473604e-05 1216 rna-XM_010147336.1 14393861 1 495 1710 Eurypyga helias 54383 CAG|GTCAGAATTT...ATGCTCTTCATT/AGTTTTCTCATG...TGCAG|GAG 1 1 17.039
76886701 GT-AG 0 1.000000099473604e-05 1609 rna-XM_010147336.1 14393861 2 1842 3450 Eurypyga helias 54383 CCA|GTAAGTGGTT...CTGTCTGTATTT/TGATTTGTTACT...TACAG|GCC 0 1 30.99
76886702 GT-AG 0 1.000000099473604e-05 1487 rna-XM_010147336.1 14393861 3 3512 4998 Eurypyga helias 54383 CAG|GTAGGTGTCC...TCTGTCTTGCCA/AATTTGTTAAAC...AACAG|CTT 1 1 37.487
76886703 GT-AG 0 2.762815631309656e-05 399 rna-XM_010147336.1 14393861 4 5141 5539 Eurypyga helias 54383 TGG|GTAAGTTGAT...GGATTCTTAAAC/AATTTTTTGAGT...TTCAG|ATT 2 1 52.609
76886704 GT-AG 0 0.0166692146110174 93 rna-XM_010147336.1 14393861 5 5610 5702 Eurypyga helias 54383 GTG|GTATGTCTTA...CATTTTTTAAAG/CTAAATCTCACA...AGCAG|ATG 0 1 60.064
76886705 GT-AG 0 1.000000099473604e-05 2432 rna-XM_010147336.1 14393861 6 5832 8263 Eurypyga helias 54383 AAA|GTAAGTAAAC...ATTATATTAACC/ATTATATTAACC...TTAAG|AGT 0 1 73.802
76886706 GT-AG 0 0.0020315112266207 403 rna-XM_010147336.1 14393861 7 8432 8834 Eurypyga helias 54383 CAG|GTATTTTAAG...GTTCCCTTCACC/GTTCCCTTCACC...TCTAG|GTG 0 1 91.693

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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]);