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)

9 rows where transcript_id = 12758602

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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
67904897 GT-AG 0 0.0003582408439202 804 rna-XM_022893143.1 12758602 1 5898181 5898984 Durio zibethinus 66656 CAA|GTATAACTTC...GTATTCTGATTT/TGTATTCTGATT...TGTAG|GGG 1 1 57.163
67904898 GT-AG 0 0.04581179093007 147 rna-XM_022893143.1 12758602 2 5899041 5899187 Durio zibethinus 66656 CAG|GTATACTATC...CTTCTTTTGAAT/TTTTGAATCATT...TACAG|GAC 0 1 59.134
67904899 GT-AG 0 1.528735297796514e-05 98 rna-XM_022893143.1 12758602 3 5899461 5899558 Durio zibethinus 66656 CAG|GTAATTTCTT...GTTTTCTTTTCT/TAGGTGATCATT...TCCAG|GAT 0 1 68.743
67904900 GT-AG 0 1.8659275320431813e-05 437 rna-XM_022893143.1 12758602 4 5899787 5900223 Durio zibethinus 66656 AAG|GTTCTTTGTT...AGTTTCTTGAGT/AGTTTGTTAATG...TTTAG|ATC 0 1 76.769
67904901 GT-AG 0 1.000000099473604e-05 236 rna-XM_022893143.1 12758602 5 5900344 5900579 Durio zibethinus 66656 CAG|GTTTGAACAC...TTATTATTATTT/TTTATATTTACA...TGCAG|GAA 0 1 80.993
67904902 GT-AG 0 0.0057333462421106 3147 rna-XM_022893143.1 12758602 6 5900709 5903855 Durio zibethinus 66656 AAG|GTATGTTTAC...CCTTTTTTAATT/CCTTTTTTAATT...TTCAG|GAG 0 1 85.533
67904903 GT-AG 0 1.000000099473604e-05 82 rna-XM_022893143.1 12758602 7 5903991 5904072 Durio zibethinus 66656 CAG|GTTGGTCGGC...TTGCCATTGTTT/GTTTGGTTCATT...TGTAG|CTT 0 1 90.285
67904904 GT-AG 0 1.000000099473604e-05 89 rna-XM_022893143.1 12758602 8 5904143 5904231 Durio zibethinus 66656 CTG|GTTAGTTTTT...CTCTTTTTATTG/GCTCTTTTTATT...TACAG|AGG 1 1 92.749
67904905 GT-AG 0 0.0003260540689308 119 rna-XM_022893143.1 12758602 9 5904333 5904451 Durio zibethinus 66656 CAT|GTATGACTGT...TGTTCGTTATTC/TCGTTATTCATT...GGTAG|ATT 0 1 96.304

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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]);