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 = 26701873

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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
148095098 GT-AG 0 0.0016205396663091 231 rna-XM_009479309.1 26701873 1 66080 66310 Pelecanus crispus 36300 TTG|GTATGTTGGA...GCATTTTTACTG/TGCATTTTTACT...TTTAG|GTC 0 1 5.614
148095099 GT-AG 0 1.3309794572735355e-05 2834 rna-XM_009479309.1 26701873 2 63144 65977 Pelecanus crispus 36300 TTG|GTAAGTTACT...CTTTTTTTGTTT/ATGCAATTAACA...TTCAG|ATT 0 1 10.052
148095100 GT-AG 0 0.0002429133248649 1127 rna-XM_009479309.1 26701873 3 61858 62984 Pelecanus crispus 36300 AAG|GTATATTAAG...AGTGTGTTAAAT/AGTGTGTTAAAT...TGTAG|GAT 0 1 16.971
148095101 GT-AG 0 9.053091612057249e-05 556 rna-XM_009479309.1 26701873 4 61108 61663 Pelecanus crispus 36300 AGA|GTAAGTTCTT...TAATGTTTATCT/CTAATGTTTATC...TTCAG|TTT 2 1 25.413
148095102 GT-AG 0 0.000314616356508 826 rna-XM_009479309.1 26701873 5 60188 61013 Pelecanus crispus 36300 CAG|GTATGTCATT...CCTCTCTTACAT/TGTTTTTTAAGT...AACAG|AGG 0 1 29.504
148095103 GT-AG 0 2.5779346275397945e-05 1095 rna-XM_009479309.1 26701873 6 58986 60080 Pelecanus crispus 36300 CAG|GTACAGTTAT...TTTTTCTTTGTC/CTTGGATTTATT...TTCAG|GCT 2 1 34.16
148095104 GT-AG 0 1.000000099473604e-05 7572 rna-XM_009479309.1 26701873 7 50063 57634 Pelecanus crispus 36300 CAG|GTAAGATGGA...TTTTTTGTAACT/TTTTTTGTAACT...TTCAG|GAG 0 1 92.95

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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]);